-- dump date 20140619_085256 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1134782000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1134782000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1134782000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782000004 Walker A motif; other site 1134782000005 ATP binding site [chemical binding]; other site 1134782000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1134782000007 Walker B motif; other site 1134782000008 arginine finger; other site 1134782000009 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1134782000010 DnaA box-binding interface [nucleotide binding]; other site 1134782000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1134782000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1134782000013 putative DNA binding surface [nucleotide binding]; other site 1134782000014 dimer interface [polypeptide binding]; other site 1134782000015 beta-clamp/clamp loader binding surface; other site 1134782000016 beta-clamp/translesion DNA polymerase binding surface; other site 1134782000017 recF protein; Region: recf; TIGR00611 1134782000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782000019 Walker A/P-loop; other site 1134782000020 ATP binding site [chemical binding]; other site 1134782000021 Q-loop/lid; other site 1134782000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782000023 ABC transporter signature motif; other site 1134782000024 Walker B; other site 1134782000025 D-loop; other site 1134782000026 H-loop/switch region; other site 1134782000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1134782000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782000029 Mg2+ binding site [ion binding]; other site 1134782000030 G-X-G motif; other site 1134782000031 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1134782000032 anchoring element; other site 1134782000033 dimer interface [polypeptide binding]; other site 1134782000034 ATP binding site [chemical binding]; other site 1134782000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1134782000036 active site 1134782000037 putative metal-binding site [ion binding]; other site 1134782000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1134782000039 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782000040 hypothetical protein; Provisional; Region: PRK11426 1134782000041 sugar phosphate phosphatase; Provisional; Region: PRK10513 1134782000042 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782000043 active site 1134782000044 motif I; other site 1134782000045 motif II; other site 1134782000046 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782000047 hypothetical protein; Provisional; Region: PRK10215 1134782000048 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1134782000049 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782000050 DNA-binding site [nucleotide binding]; DNA binding site 1134782000051 FCD domain; Region: FCD; pfam07729 1134782000052 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1134782000053 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1134782000054 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1134782000055 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1134782000056 active site 1134782000057 intersubunit interface [polypeptide binding]; other site 1134782000058 catalytic residue [active] 1134782000059 galactonate dehydratase; Provisional; Region: PRK14017 1134782000060 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 1134782000061 putative active site pocket [active] 1134782000062 putative metal binding site [ion binding]; other site 1134782000063 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000064 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782000065 putative substrate translocation pore; other site 1134782000066 putative oxidoreductase; Provisional; Region: PRK11445 1134782000067 hypothetical protein; Provisional; Region: PRK07236 1134782000068 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 1134782000069 hypothetical protein; Provisional; Region: PRK11616 1134782000070 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1134782000071 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1134782000072 putative dimer interface [polypeptide binding]; other site 1134782000073 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1134782000074 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1134782000075 putative dimer interface [polypeptide binding]; other site 1134782000076 putative transporter; Validated; Region: PRK03818 1134782000077 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1134782000078 TrkA-C domain; Region: TrkA_C; pfam02080 1134782000079 TrkA-C domain; Region: TrkA_C; pfam02080 1134782000080 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1134782000081 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1134782000082 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782000083 DNA-binding site [nucleotide binding]; DNA binding site 1134782000084 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 1134782000085 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 1134782000086 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1134782000087 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782000088 active site turn [active] 1134782000089 phosphorylation site [posttranslational modification] 1134782000090 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1134782000091 NAD(P) binding site [chemical binding]; other site 1134782000092 LDH/MDH dimer interface [polypeptide binding]; other site 1134782000093 substrate binding site [chemical binding]; other site 1134782000094 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 1134782000095 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782000096 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782000097 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782000098 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782000099 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782000100 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782000101 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1134782000102 putative transporter; Provisional; Region: PRK10484 1134782000103 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 1134782000104 Na binding site [ion binding]; other site 1134782000105 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1134782000106 Sulfatase; Region: Sulfatase; pfam00884 1134782000107 Predicted membrane protein [Function unknown]; Region: COG2149 1134782000108 Domain of unknown function (DUF202); Region: DUF202; pfam02656 1134782000109 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1134782000110 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 1134782000111 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000112 putative substrate translocation pore; other site 1134782000113 acetolactate synthase catalytic subunit; Validated; Region: PRK08155 1134782000114 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1134782000115 PYR/PP interface [polypeptide binding]; other site 1134782000116 dimer interface [polypeptide binding]; other site 1134782000117 TPP binding site [chemical binding]; other site 1134782000118 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782000119 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1134782000120 TPP-binding site [chemical binding]; other site 1134782000121 dimer interface [polypeptide binding]; other site 1134782000122 Acetolactate synthase, small (regulatory) subunit [Amino acid transport and metabolism]; Region: IlvH; COG0440 1134782000123 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1134782000124 putative valine binding site [chemical binding]; other site 1134782000125 dimer interface [polypeptide binding]; other site 1134782000126 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 1134782000127 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782000128 active site 1134782000129 phosphorylation site [posttranslational modification] 1134782000130 intermolecular recognition site; other site 1134782000131 dimerization interface [polypeptide binding]; other site 1134782000132 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782000133 DNA binding residues [nucleotide binding] 1134782000134 dimerization interface [polypeptide binding]; other site 1134782000135 sensory histidine kinase UhpB; Provisional; Region: PRK11644 1134782000136 MASE1; Region: MASE1; pfam05231 1134782000137 Histidine kinase; Region: HisKA_3; pfam07730 1134782000138 regulatory protein UhpC; Provisional; Region: PRK11663 1134782000139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000140 putative substrate translocation pore; other site 1134782000141 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 1134782000142 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000143 putative substrate translocation pore; other site 1134782000144 cryptic adenine deaminase; Provisional; Region: PRK10027 1134782000145 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1134782000146 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1134782000147 active site 1134782000148 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1134782000149 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1134782000150 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 1134782000151 ribonucleoside transporter; Reviewed; Region: nepI; PRK10213 1134782000152 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000153 putative substrate translocation pore; other site 1134782000154 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1134782000155 cytoplasmic membrane lipoprotein-28; Provisional; Region: PRK09861 1134782000156 lipoprotein, YaeC family; Region: TIGR00363 1134782000157 EamA-like transporter family; Region: EamA; pfam00892 1134782000158 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1134782000159 EamA-like transporter family; Region: EamA; pfam00892 1134782000160 sugar efflux transporter; Region: 2A0120; TIGR00899 1134782000161 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000162 putative substrate translocation pore; other site 1134782000163 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1134782000164 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1134782000165 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 1134782000166 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 1134782000167 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 1134782000168 Protein of unknown function (DUF987); Region: DUF987; pfam06174 1134782000169 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1134782000170 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782000171 MPN+ (JAMM) motif; other site 1134782000172 Zinc-binding site [ion binding]; other site 1134782000173 Antirestriction protein; Region: Antirestrict; pfam03230 1134782000174 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1134782000175 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 1134782000176 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782000177 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1134782000178 hypothetical protein; Provisional; Region: PRK09945 1134782000179 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782000180 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782000181 Autotransporter beta-domain; Region: Autotransporter; smart00869 1134782000182 Predicted GTPase [General function prediction only]; Region: COG3596 1134782000183 YfjP GTPase; Region: YfjP; cd11383 1134782000184 G1 box; other site 1134782000185 GTP/Mg2+ binding site [chemical binding]; other site 1134782000186 Switch I region; other site 1134782000187 G2 box; other site 1134782000188 Switch II region; other site 1134782000189 G3 box; other site 1134782000190 G4 box; other site 1134782000191 G5 box; other site 1134782000192 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1134782000193 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1134782000194 Haemolysin expression modulating protein; Region: HHA; pfam05321 1134782000195 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1134782000196 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782000197 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782000198 EamA-like transporter family; Region: EamA; pfam00892 1134782000199 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1134782000200 EamA-like transporter family; Region: EamA; pfam00892 1134782000201 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000202 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782000203 putative substrate translocation pore; other site 1134782000204 tetracycline repressor protein TetR; Provisional; Region: PRK13756 1134782000205 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782000206 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 1134782000207 putative transcriptional regulator MerR; Provisional; Region: PRK13752 1134782000208 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1134782000209 DNA binding residues [nucleotide binding] 1134782000210 dimer interface [polypeptide binding]; other site 1134782000211 mercury binding site [ion binding]; other site 1134782000212 putative mercuric transport protein; Provisional; Region: PRK13751 1134782000213 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1134782000214 metal-binding site [ion binding] 1134782000215 putative mercury transport protein MerC; Provisional; Region: PRK13755 1134782000216 putative mercuric reductase; Provisional; Region: PRK13748 1134782000217 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1134782000218 metal-binding site [ion binding] 1134782000219 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782000220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782000221 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1134782000222 transcriptional regulator MerD; Provisional; Region: PRK13749 1134782000223 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1134782000224 DNA binding residues [nucleotide binding] 1134782000225 putative mercury resistance protein; Provisional; Region: PRK13747 1134782000226 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782000227 Integrase core domain; Region: rve; pfam00665 1134782000228 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1134782000229 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782000230 Integrase core domain; Region: rve; pfam00665 1134782000231 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 1134782000232 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 1134782000233 Phosphotransferase enzyme family; Region: APH; pfam01636 1134782000234 active site 1134782000235 ATP binding site [chemical binding]; other site 1134782000236 antibiotic binding site [chemical binding]; other site 1134782000237 dihydropteroate synthase; Region: DHPS; TIGR01496 1134782000238 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1134782000239 substrate binding pocket [chemical binding]; other site 1134782000240 dimer interface [polypeptide binding]; other site 1134782000241 inhibitor binding site; inhibition site 1134782000242 Replication protein C (RepC); Region: RepC; pfam06504 1134782000243 Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent; Region: repA; cd01125 1134782000244 AAA domain; Region: AAA_25; pfam13481 1134782000245 hexamer interface [polypeptide binding]; other site 1134782000246 NTP binding site [chemical binding]; other site 1134782000247 Walker B motif; other site 1134782000248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1134782000249 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782000250 Integrase core domain; Region: rve; pfam00665 1134782000251 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 1134782000252 beta-lactamase TEM; Provisional; Region: PRK15442 1134782000253 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 1134782000254 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1134782000255 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1134782000256 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1134782000257 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1134782000258 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782000259 Integrase core domain; Region: rve; pfam00665 1134782000260 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 1134782000261 valyl-tRNA synthetase-like protein; Provisional; Region: PTZ00419 1134782000262 integrase/recombinase; Provisional; Region: PRK15417 1134782000263 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 1134782000264 Int/Topo IB signature motif; other site 1134782000265 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1134782000266 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1134782000267 folate binding site [chemical binding]; other site 1134782000268 NADP+ binding site [chemical binding]; other site 1134782000269 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 1134782000270 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1134782000271 dihydropteroate synthase; Region: DHPS; TIGR01496 1134782000272 substrate binding pocket [chemical binding]; other site 1134782000273 dimer interface [polypeptide binding]; other site 1134782000274 inhibitor binding site; inhibition site 1134782000275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1134782000276 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782000277 Integrase core domain; Region: rve; pfam00665 1134782000278 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1134782000279 multiple promoter invertase; Provisional; Region: mpi; PRK13413 1134782000280 catalytic residues [active] 1134782000281 catalytic nucleophile [active] 1134782000282 Presynaptic Site I dimer interface [polypeptide binding]; other site 1134782000283 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1134782000284 Synaptic Flat tetramer interface [polypeptide binding]; other site 1134782000285 Synaptic Site I dimer interface [polypeptide binding]; other site 1134782000286 DNA binding site [nucleotide binding] 1134782000287 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1134782000288 DNA-binding interface [nucleotide binding]; DNA binding site 1134782000289 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 1134782000290 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 1134782000291 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782000292 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782000293 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782000294 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782000295 integrase; Provisional; Region: PRK09692 1134782000296 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782000297 active site 1134782000298 Int/Topo IB signature motif; other site 1134782000299 putative transporter; Provisional; Region: PRK11462 1134782000300 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1134782000301 putative alpha-glucosidase; Provisional; Region: PRK10658 1134782000302 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 1134782000303 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 1134782000304 active site 1134782000305 homotrimer interface [polypeptide binding]; other site 1134782000306 catalytic site [active] 1134782000307 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 1134782000308 AsmA family; Region: AsmA; pfam05170 1134782000309 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1134782000310 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1134782000311 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1134782000312 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1134782000313 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1134782000314 generic binding surface II; other site 1134782000315 ssDNA binding site; other site 1134782000316 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782000317 ATP binding site [chemical binding]; other site 1134782000318 putative Mg++ binding site [ion binding]; other site 1134782000319 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782000320 nucleotide binding region [chemical binding]; other site 1134782000321 ATP-binding site [chemical binding]; other site 1134782000322 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1134782000323 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1134782000324 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1134782000325 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1134782000326 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782000327 Zn2+ binding site [ion binding]; other site 1134782000328 Mg2+ binding site [ion binding]; other site 1134782000329 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1134782000330 synthetase active site [active] 1134782000331 NTP binding site [chemical binding]; other site 1134782000332 metal binding site [ion binding]; metal-binding site 1134782000333 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1134782000334 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1134782000335 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1134782000336 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1134782000337 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1134782000338 catalytic site [active] 1134782000339 G-X2-G-X-G-K; other site 1134782000340 NAD-dependent DNA ligase LigB; Reviewed; Region: ligB; PRK08097 1134782000341 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cl03295 1134782000342 nucleotide binding pocket [chemical binding]; other site 1134782000343 K-X-D-G motif; other site 1134782000344 catalytic site [active] 1134782000345 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1134782000346 Predicted membrane protein [Function unknown]; Region: COG2860 1134782000347 UPF0126 domain; Region: UPF0126; pfam03458 1134782000348 UPF0126 domain; Region: UPF0126; pfam03458 1134782000349 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 1134782000350 BRO family, N-terminal domain; Region: Bro-N; pfam02498 1134782000351 hypothetical protein; Provisional; Region: PRK11820 1134782000352 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1134782000353 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1134782000354 ribonuclease PH; Reviewed; Region: rph; PRK00173 1134782000355 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1134782000356 hexamer interface [polypeptide binding]; other site 1134782000357 active site 1134782000358 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782000359 active site 1134782000360 division inhibitor protein; Provisional; Region: slmA; PRK09480 1134782000361 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782000362 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1134782000363 trimer interface [polypeptide binding]; other site 1134782000364 active site 1134782000365 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1134782000366 Flavoprotein; Region: Flavoprotein; pfam02441 1134782000367 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1134782000368 hypothetical protein; Reviewed; Region: PRK00024 1134782000369 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782000370 MPN+ (JAMM) motif; other site 1134782000371 Zinc-binding site [ion binding]; other site 1134782000372 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1134782000373 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1134782000374 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1134782000375 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1134782000376 DNA binding site [nucleotide binding] 1134782000377 catalytic residue [active] 1134782000378 H2TH interface [polypeptide binding]; other site 1134782000379 putative catalytic residues [active] 1134782000380 turnover-facilitating residue; other site 1134782000381 intercalation triad [nucleotide binding]; other site 1134782000382 8OG recognition residue [nucleotide binding]; other site 1134782000383 putative reading head residues; other site 1134782000384 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1134782000385 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1134782000386 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1134782000387 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1134782000388 active site 1134782000389 (T/H)XGH motif; other site 1134782000390 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1134782000391 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1134782000392 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1134782000393 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 1134782000394 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1134782000395 putative active site [active] 1134782000396 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1134782000397 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1134782000398 lipopolysaccharide core heptose(I) kinase RfaP; Provisional; Region: PRK15123 1134782000399 lipopolysaccharide 1,3-galactosyltransferase; Provisional; Region: PRK15171 1134782000400 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1134782000401 Ligand binding site; other site 1134782000402 metal-binding site 1134782000403 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 1134782000404 Lipopolysaccharide core biosynthesis protein (WaaY); Region: WaaY; cl17526 1134782000405 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 1134782000406 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1134782000407 Ligand binding site; other site 1134782000408 metal-binding site 1134782000409 Glycosyl transferase family 8 C-terminal; Region: Glyco_transf_8C; pfam08437 1134782000410 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional; Region: PRK15484 1134782000411 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1134782000412 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1134782000413 O-antigen ligase RfaL; Provisional; Region: PRK15487 1134782000414 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1134782000415 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1134782000416 putative active site [active] 1134782000417 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1134782000418 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1134782000419 putative active site [active] 1134782000420 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1134782000421 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1134782000422 NADP binding site [chemical binding]; other site 1134782000423 homopentamer interface [polypeptide binding]; other site 1134782000424 substrate binding site [chemical binding]; other site 1134782000425 active site 1134782000426 hypothetical protein; Provisional; Region: PRK11346 1134782000427 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1134782000428 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1134782000429 substrate-cofactor binding pocket; other site 1134782000430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782000431 catalytic residue [active] 1134782000432 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1134782000433 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1134782000434 NAD(P) binding site [chemical binding]; other site 1134782000435 putative glycosyl transferase; Provisional; Region: PRK10073 1134782000436 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1134782000437 active site 1134782000438 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1134782000439 NodB motif; other site 1134782000440 putative active site [active] 1134782000441 putative catalytic site [active] 1134782000442 Zn binding site [ion binding]; other site 1134782000443 AmiB activator; Provisional; Region: PRK11637 1134782000444 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1134782000445 Peptidase family M23; Region: Peptidase_M23; pfam01551 1134782000446 phosphoglyceromutase; Provisional; Region: PRK05434 1134782000447 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 1134782000448 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1134782000449 active site residue [active] 1134782000450 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1134782000451 GSH binding site [chemical binding]; other site 1134782000452 catalytic residues [active] 1134782000453 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1134782000454 SecA binding site; other site 1134782000455 Preprotein binding site; other site 1134782000456 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1134782000457 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1134782000458 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1134782000459 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1134782000460 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1134782000461 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1134782000462 trimer interface [polypeptide binding]; other site 1134782000463 active site 1134782000464 substrate binding site [chemical binding]; other site 1134782000465 CoA binding site [chemical binding]; other site 1134782000466 putative rRNA methylase; Provisional; Region: PRK10358 1134782000467 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 1134782000468 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1134782000469 phosphate binding site [ion binding]; other site 1134782000470 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 1134782000471 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782000472 DNA-binding site [nucleotide binding]; DNA binding site 1134782000473 FCD domain; Region: FCD; pfam07729 1134782000474 L-lactate permease; Provisional; Region: PRK10420 1134782000475 glycolate transporter; Provisional; Region: PRK09695 1134782000476 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782000477 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1134782000478 trimer interface [polypeptide binding]; other site 1134782000479 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1134782000480 trimer interface [polypeptide binding]; other site 1134782000481 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1134782000482 Haemagglutinin; Region: HIM; pfam05662 1134782000483 Haemagglutinin; Region: HIM; pfam05662 1134782000484 YadA-like C-terminal region; Region: YadA; pfam03895 1134782000485 Protein of unknown function (DUF3251); Region: DUF3251; cl08186 1134782000486 hypothetical protein; Provisional; Region: PRK11020 1134782000487 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1134782000488 mannitol repressor protein; Provisional; Region: mtlR; PRK11001 1134782000489 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 1134782000490 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1134782000491 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1134782000492 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 1134782000493 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1134782000494 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1134782000495 active site 1134782000496 P-loop; other site 1134782000497 phosphorylation site [posttranslational modification] 1134782000498 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782000499 active site 1134782000500 phosphorylation site [posttranslational modification] 1134782000501 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1134782000502 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1134782000503 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782000504 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782000505 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1134782000506 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782000507 RHS protein; Region: RHS; pfam03527 1134782000508 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782000509 putative lyase; Provisional; Region: PRK09687 1134782000510 PAAR motif; Region: PAAR_motif; cl15808 1134782000511 RHS Repeat; Region: RHS_repeat; pfam05593 1134782000512 RHS Repeat; Region: RHS_repeat; pfam05593 1134782000513 RHS Repeat; Region: RHS_repeat; cl11982 1134782000514 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782000515 RHS Repeat; Region: RHS_repeat; pfam05593 1134782000516 RHS Repeat; Region: RHS_repeat; pfam05593 1134782000517 RHS protein; Region: RHS; pfam03527 1134782000518 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782000519 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 1134782000520 putative glutathione S-transferase; Provisional; Region: PRK10357 1134782000521 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1134782000522 putative C-terminal domain interface [polypeptide binding]; other site 1134782000523 putative GSH binding site (G-site) [chemical binding]; other site 1134782000524 putative dimer interface [polypeptide binding]; other site 1134782000525 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1134782000526 dimer interface [polypeptide binding]; other site 1134782000527 N-terminal domain interface [polypeptide binding]; other site 1134782000528 putative substrate binding pocket (H-site) [chemical binding]; other site 1134782000529 selenocysteine synthase; Provisional; Region: PRK04311 1134782000530 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1134782000531 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1134782000532 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782000533 catalytic residue [active] 1134782000534 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1134782000535 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1134782000536 G1 box; other site 1134782000537 putative GEF interaction site [polypeptide binding]; other site 1134782000538 GTP/Mg2+ binding site [chemical binding]; other site 1134782000539 Switch I region; other site 1134782000540 G2 box; other site 1134782000541 G3 box; other site 1134782000542 Switch II region; other site 1134782000543 G4 box; other site 1134782000544 G5 box; other site 1134782000545 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1134782000546 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 1134782000547 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1134782000548 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1134782000549 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1134782000550 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1134782000551 dimer interface [polypeptide binding]; other site 1134782000552 active site 1134782000553 metal binding site [ion binding]; metal-binding site 1134782000554 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1134782000555 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1134782000556 NAD(P) binding site [chemical binding]; other site 1134782000557 catalytic residues [active] 1134782000558 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 1134782000559 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1134782000560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782000561 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782000562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782000563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782000564 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782000565 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1134782000566 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1134782000567 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1134782000568 intersubunit interface [polypeptide binding]; other site 1134782000569 active site 1134782000570 Zn2+ binding site [ion binding]; other site 1134782000571 putative L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13210 1134782000572 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1134782000573 AP (apurinic/apyrimidinic) site pocket; other site 1134782000574 DNA interaction; other site 1134782000575 Metal-binding active site; metal-binding site 1134782000576 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1134782000577 active site 1134782000578 dimer interface [polypeptide binding]; other site 1134782000579 magnesium binding site [ion binding]; other site 1134782000580 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1134782000581 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1134782000582 putative N- and C-terminal domain interface [polypeptide binding]; other site 1134782000583 putative active site [active] 1134782000584 MgATP binding site [chemical binding]; other site 1134782000585 catalytic site [active] 1134782000586 metal binding site [ion binding]; metal-binding site 1134782000587 putative xylulose binding site [chemical binding]; other site 1134782000588 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1134782000589 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1134782000590 L-dehydroascorbate transporter large permease subunit; Provisional; Region: PRK15060 1134782000591 DctM-like transporters; Region: DctM; pfam06808 1134782000592 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM; Provisional; Region: PRK09877 1134782000593 uncharacterized protein, YhcH/YjgK/YiaL family; Region: TIGR00022 1134782000594 2,3-diketo-L-gulonate reductase; Provisional; Region: PRK13260 1134782000595 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1134782000596 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1134782000597 Bacterial transcriptional regulator; Region: IclR; pfam01614 1134782000598 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1134782000599 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1134782000600 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782000601 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1134782000602 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782000603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782000604 homodimer interface [polypeptide binding]; other site 1134782000605 catalytic residue [active] 1134782000606 potential frameshift: common BLAST hit: gi|218697288|ref|YP_002404955.1| periplasmic alpha-amylase 1134782000607 hypothetical protein; Provisional; Region: PRK10356 1134782000608 Uncharacterized FlgJ-related protein [General function prediction only]; Region: Bax; COG2992 1134782000609 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 1134782000610 putative dimerization interface [polypeptide binding]; other site 1134782000611 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1134782000612 putative ligand binding site [chemical binding]; other site 1134782000613 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782000614 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782000615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782000616 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782000617 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782000618 TM-ABC transporter signature motif; other site 1134782000619 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1134782000620 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782000621 Walker A/P-loop; other site 1134782000622 ATP binding site [chemical binding]; other site 1134782000623 Q-loop/lid; other site 1134782000624 ABC transporter signature motif; other site 1134782000625 Walker B; other site 1134782000626 D-loop; other site 1134782000627 H-loop/switch region; other site 1134782000628 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782000629 D-xylose transporter subunit XylF; Provisional; Region: xylF; PRK10355 1134782000630 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1134782000631 putative ligand binding site [chemical binding]; other site 1134782000632 xylose isomerase; Provisional; Region: PRK05474 1134782000633 xylose isomerase; Region: xylose_isom_A; TIGR02630 1134782000634 xylulokinase; Provisional; Region: PRK15027 1134782000635 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1134782000636 N- and C-terminal domain interface [polypeptide binding]; other site 1134782000637 active site 1134782000638 MgATP binding site [chemical binding]; other site 1134782000639 catalytic site [active] 1134782000640 metal binding site [ion binding]; metal-binding site 1134782000641 xylulose binding site [chemical binding]; other site 1134782000642 homodimer interface [polypeptide binding]; other site 1134782000643 hypothetical protein; Provisional; Region: PRK11403 1134782000644 yiaA/B two helix domain; Region: YiaAB; pfam05360 1134782000645 hypothetical protein; Provisional; Region: PRK11383 1134782000646 yiaA/B two helix domain; Region: YiaAB; pfam05360 1134782000647 yiaA/B two helix domain; Region: YiaAB; pfam05360 1134782000648 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 1134782000649 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1134782000650 YsaB-like lipoprotein; Region: YsaB; pfam13983 1134782000651 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1134782000652 dimer interface [polypeptide binding]; other site 1134782000653 motif 1; other site 1134782000654 active site 1134782000655 motif 2; other site 1134782000656 motif 3; other site 1134782000657 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 1134782000658 DALR anticodon binding domain; Region: DALR_1; pfam05746 1134782000659 anticodon binding site; other site 1134782000660 tRNA binding surface [nucleotide binding]; other site 1134782000661 small toxic polypeptide; Provisional; Region: PRK09759 1134782000662 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782000663 DNA-binding site [nucleotide binding]; DNA binding site 1134782000664 RNA-binding motif; other site 1134782000665 Predicted transcriptional regulator [Transcription]; Region: COG2944 1134782000666 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782000667 non-specific DNA binding site [nucleotide binding]; other site 1134782000668 salt bridge; other site 1134782000669 sequence-specific DNA binding site [nucleotide binding]; other site 1134782000670 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1134782000671 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 1134782000672 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1134782000673 dimerization interface [polypeptide binding]; other site 1134782000674 ligand binding site [chemical binding]; other site 1134782000675 NADP binding site [chemical binding]; other site 1134782000676 catalytic site [active] 1134782000677 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1134782000678 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782000679 ligand binding site [chemical binding]; other site 1134782000680 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1134782000681 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1134782000682 molybdopterin cofactor binding site [chemical binding]; other site 1134782000683 substrate binding site [chemical binding]; other site 1134782000684 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1134782000685 molybdopterin cofactor binding site; other site 1134782000686 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1134782000687 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782000688 Coenzyme A binding pocket [chemical binding]; other site 1134782000689 3-methyl-adenine DNA glycosylase I; Provisional; Region: PRK10353 1134782000690 Autotransporter protein or domain, integral membrane beta-barrel involved in protein secretion [Cell motility and secretion]; Region: COG5571 1134782000691 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1134782000692 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000693 putative substrate translocation pore; other site 1134782000694 long polar fimbrial protein LpfA; Provisional; Region: PRK15209 1134782000695 long polar fimbrial chaperone LpfB; Provisional; Region: PRK15208 1134782000696 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782000697 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782000698 long polar fimbrial outer membrane usher protein LpfC; Provisional; Region: PRK15207 1134782000699 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782000700 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782000701 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782000702 long polar fimbrial protein LpfD; Provisional; Region: PRK15206 1134782000703 long polar fimbrial protein LpfE; Provisional; Region: PRK15205 1134782000704 phosphoethanolamine transferase; Provisional; Region: PRK11560 1134782000705 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1134782000706 Sulfatase; Region: Sulfatase; pfam00884 1134782000707 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1134782000708 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1134782000709 peptide binding site [polypeptide binding]; other site 1134782000710 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1134782000711 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782000712 dimer interface [polypeptide binding]; other site 1134782000713 conserved gate region; other site 1134782000714 putative PBP binding loops; other site 1134782000715 ABC-ATPase subunit interface; other site 1134782000716 dipeptide transporter; Provisional; Region: PRK10913 1134782000717 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1134782000718 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782000719 dimer interface [polypeptide binding]; other site 1134782000720 conserved gate region; other site 1134782000721 putative PBP binding loops; other site 1134782000722 ABC-ATPase subunit interface; other site 1134782000723 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1134782000724 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782000725 Walker A/P-loop; other site 1134782000726 ATP binding site [chemical binding]; other site 1134782000727 Q-loop/lid; other site 1134782000728 ABC transporter signature motif; other site 1134782000729 Walker B; other site 1134782000730 D-loop; other site 1134782000731 H-loop/switch region; other site 1134782000732 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1134782000733 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1134782000734 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782000735 Walker A/P-loop; other site 1134782000736 ATP binding site [chemical binding]; other site 1134782000737 Q-loop/lid; other site 1134782000738 ABC transporter signature motif; other site 1134782000739 Walker B; other site 1134782000740 D-loop; other site 1134782000741 H-loop/switch region; other site 1134782000742 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1134782000743 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1134782000744 serine transporter; Region: stp; TIGR00814 1134782000745 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 1134782000746 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 1134782000747 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1134782000748 celllulose biosynthesis operon protein BcsF/YhjT; Region: cellullose_BcsF; TIGR03493 1134782000749 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1134782000750 cell division protein; Provisional; Region: PRK10037 1134782000751 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1134782000752 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1134782000753 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1134782000754 DXD motif; other site 1134782000755 PilZ domain; Region: PilZ; pfam07238 1134782000756 cellulose synthase regulator protein; Provisional; Region: PRK11114 1134782000757 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1134782000758 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1134782000759 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782000760 binding surface 1134782000761 TPR motif; other site 1134782000762 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782000763 binding surface 1134782000764 TPR motif; other site 1134782000765 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1134782000766 putative diguanylate cyclase; Provisional; Region: PRK13561 1134782000767 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782000768 metal binding site [ion binding]; metal-binding site 1134782000769 active site 1134782000770 I-site; other site 1134782000771 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782000772 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1134782000773 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1134782000774 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1134782000775 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1134782000776 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782000777 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1134782000778 substrate binding site [chemical binding]; other site 1134782000779 ATP binding site [chemical binding]; other site 1134782000780 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782000781 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1134782000782 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1134782000783 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000784 metabolite-proton symporter; Region: 2A0106; TIGR00883 1134782000785 putative substrate translocation pore; other site 1134782000786 inner membrane protein YhjD; Region: TIGR00766 1134782000787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782000788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782000789 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 1134782000790 putative effector binding pocket; other site 1134782000791 putative dimerization interface [polypeptide binding]; other site 1134782000792 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782000793 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782000794 DNA binding residues [nucleotide binding] 1134782000795 dimerization interface [polypeptide binding]; other site 1134782000796 trehalase; Provisional; Region: treF; PRK13270 1134782000797 Trehalase; Region: Trehalase; pfam01204 1134782000798 Haem-binding domain; Region: Haem_bd; pfam14376 1134782000799 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1134782000800 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1134782000801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782000802 catalytic residue [active] 1134782000803 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 1134782000804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782000805 transcriptional regulator YdeO; Provisional; Region: PRK09940 1134782000806 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782000807 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1134782000808 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782000809 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 1134782000810 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782000811 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782000812 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1134782000813 pyruvate kinase; Provisional; Region: PRK05826 1134782000814 acid-resistance membrane protein; Provisional; Region: PRK10209 1134782000815 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1134782000816 acid-resistance protein; Provisional; Region: PRK10208 1134782000817 acid-resistance protein; Provisional; Region: hdeB; PRK11566 1134782000818 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1134782000819 MgtC family; Region: MgtC; pfam02308 1134782000820 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782000821 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782000822 DNA binding residues [nucleotide binding] 1134782000823 dimerization interface [polypeptide binding]; other site 1134782000824 outer membrane lipoprotein, Slp family; Region: slp; TIGR00752 1134782000825 Predicted permeases [General function prediction only]; Region: COG0701 1134782000826 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782000827 dimerization interface [polypeptide binding]; other site 1134782000828 putative DNA binding site [nucleotide binding]; other site 1134782000829 putative Zn2+ binding site [ion binding]; other site 1134782000830 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1134782000831 ArsC family; Region: ArsC; pfam03960 1134782000832 catalytic residues [active] 1134782000833 arsenical pump membrane protein; Provisional; Region: PRK15445 1134782000834 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 1134782000835 transmembrane helices; other site 1134782000836 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782000837 dimerization interface [polypeptide binding]; other site 1134782000838 putative DNA binding site [nucleotide binding]; other site 1134782000839 putative Zn2+ binding site [ion binding]; other site 1134782000840 glutathione reductase; Validated; Region: PRK06116 1134782000841 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782000842 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782000843 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1134782000844 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1134782000845 oligopeptidase A; Provisional; Region: PRK10911 1134782000846 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1134782000847 active site 1134782000848 Zn binding site [ion binding]; other site 1134782000849 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782000850 S-adenosylmethionine binding site [chemical binding]; other site 1134782000851 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1134782000852 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782000853 putative substrate translocation pore; other site 1134782000854 POT family; Region: PTR2; pfam00854 1134782000855 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782000856 Ligand Binding Site [chemical binding]; other site 1134782000857 universal stress protein UspB; Provisional; Region: PRK04960 1134782000858 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1134782000859 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1134782000860 Predicted flavoproteins [General function prediction only]; Region: COG2081 1134782000861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782000862 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1134782000863 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1134782000864 AAA ATPase domain; Region: AAA_16; pfam13191 1134782000865 AAA domain; Region: AAA_22; pfam13401 1134782000866 TniQ; Region: TniQ; pfam06527 1134782000867 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782000868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782000869 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782000870 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782000871 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782000872 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782000873 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782000874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782000875 Transposase; Region: HTH_Tnp_1; pfam01527 1134782000876 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782000877 salt bridge; other site 1134782000878 non-specific DNA binding site [nucleotide binding]; other site 1134782000879 sequence-specific DNA binding site [nucleotide binding]; other site 1134782000880 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782000881 Walker A/P-loop; other site 1134782000882 ATP binding site [chemical binding]; other site 1134782000883 AAA ATPase domain; Region: AAA_15; pfam13175 1134782000884 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1134782000885 active site 1134782000886 metal binding site [ion binding]; metal-binding site 1134782000887 Domain of unknown function (DUF305); Region: DUF305; cl17794 1134782000888 sensor kinase CusS; Provisional; Region: PRK09835 1134782000889 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782000890 dimerization interface [polypeptide binding]; other site 1134782000891 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782000892 dimer interface [polypeptide binding]; other site 1134782000893 phosphorylation site [posttranslational modification] 1134782000894 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782000895 ATP binding site [chemical binding]; other site 1134782000896 Mg2+ binding site [ion binding]; other site 1134782000897 G-X-G motif; other site 1134782000898 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1134782000899 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782000900 active site 1134782000901 phosphorylation site [posttranslational modification] 1134782000902 intermolecular recognition site; other site 1134782000903 dimerization interface [polypeptide binding]; other site 1134782000904 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782000905 DNA binding site [nucleotide binding] 1134782000906 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1134782000907 periplasmic copper-binding protein; Provisional; Region: PRK09838 1134782000908 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1134782000909 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782000910 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1134782000911 Protein of unknown function, DUF; Region: DUF411; cl01142 1134782000912 YHS domain; Region: YHS; pfam04945 1134782000913 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1134782000914 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1134782000915 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782000916 motif II; other site 1134782000917 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 1134782000918 Peptidase family M23; Region: Peptidase_M23; pfam01551 1134782000919 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1134782000920 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1134782000921 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1134782000922 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1134782000923 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1134782000924 CopC domain; Region: CopC; pfam04234 1134782000925 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1134782000926 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 1134782000927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782000928 active site 1134782000929 phosphorylation site [posttranslational modification] 1134782000930 intermolecular recognition site; other site 1134782000931 dimerization interface [polypeptide binding]; other site 1134782000932 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782000933 DNA binding site [nucleotide binding] 1134782000934 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1134782000935 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782000936 dimerization interface [polypeptide binding]; other site 1134782000937 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782000938 dimer interface [polypeptide binding]; other site 1134782000939 phosphorylation site [posttranslational modification] 1134782000940 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782000941 ATP binding site [chemical binding]; other site 1134782000942 Mg2+ binding site [ion binding]; other site 1134782000943 G-X-G motif; other site 1134782000944 Protein of unknown function (DUF2776); Region: DUF2776; pfam10951 1134782000945 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 1134782000946 Domain of unknown function (DUF4049); Region: DUF4049; pfam13258 1134782000947 HlyD family secretion protein; Region: HlyD; pfam00529 1134782000948 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782000949 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782000950 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1134782000951 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1134782000952 Walker A/P-loop; other site 1134782000953 ATP binding site [chemical binding]; other site 1134782000954 Q-loop/lid; other site 1134782000955 ABC transporter signature motif; other site 1134782000956 Walker B; other site 1134782000957 D-loop; other site 1134782000958 H-loop/switch region; other site 1134782000959 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1134782000960 Walker A/P-loop; other site 1134782000961 ATP binding site [chemical binding]; other site 1134782000962 Q-loop/lid; other site 1134782000963 ABC transporter signature motif; other site 1134782000964 Walker B; other site 1134782000965 D-loop; other site 1134782000966 H-loop/switch region; other site 1134782000967 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1134782000968 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1134782000969 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1134782000970 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1134782000971 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1134782000972 HicB family; Region: HicB; pfam05534 1134782000973 nickel responsive regulator; Provisional; Region: PRK02967 1134782000974 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1134782000975 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1134782000976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782000977 Walker A/P-loop; other site 1134782000978 ATP binding site [chemical binding]; other site 1134782000979 Q-loop/lid; other site 1134782000980 ABC transporter signature motif; other site 1134782000981 Walker B; other site 1134782000982 D-loop; other site 1134782000983 H-loop/switch region; other site 1134782000984 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1134782000985 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782000986 Walker A/P-loop; other site 1134782000987 ATP binding site [chemical binding]; other site 1134782000988 Q-loop/lid; other site 1134782000989 ABC transporter signature motif; other site 1134782000990 Walker B; other site 1134782000991 D-loop; other site 1134782000992 H-loop/switch region; other site 1134782000993 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1134782000994 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1134782000995 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782000996 dimer interface [polypeptide binding]; other site 1134782000997 conserved gate region; other site 1134782000998 putative PBP binding loops; other site 1134782000999 ABC-ATPase subunit interface; other site 1134782001000 nickel transporter permease NikB; Provisional; Region: PRK10352 1134782001001 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001002 dimer interface [polypeptide binding]; other site 1134782001003 conserved gate region; other site 1134782001004 putative PBP binding loops; other site 1134782001005 ABC-ATPase subunit interface; other site 1134782001006 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1134782001007 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1134782001008 substrate binding site [chemical binding]; other site 1134782001009 holo-(acyl carrier protein) synthase 2; Provisional; Region: PRK10351 1134782001010 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1134782001011 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 1134782001012 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1134782001013 major facilitator superfamily transporter; Provisional; Region: PRK05122 1134782001014 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782001015 putative substrate translocation pore; other site 1134782001016 hypothetical protein; Provisional; Region: PRK11615 1134782001017 hypothetical protein; Provisional; Region: PRK11212 1134782001018 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1134782001019 CPxP motif; other site 1134782001020 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1134782001021 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1134782001022 metal-binding site [ion binding] 1134782001023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1134782001024 Predicted membrane protein [Function unknown]; Region: COG3714 1134782001025 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1134782001026 hypothetical protein; Provisional; Region: PRK10910 1134782001027 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1134782001028 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782001029 S-adenosylmethionine binding site [chemical binding]; other site 1134782001030 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1134782001031 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1134782001032 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1134782001033 P loop; other site 1134782001034 GTP binding site [chemical binding]; other site 1134782001035 cell division protein FtsE; Provisional; Region: PRK10908 1134782001036 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782001037 Walker A/P-loop; other site 1134782001038 ATP binding site [chemical binding]; other site 1134782001039 Q-loop/lid; other site 1134782001040 ABC transporter signature motif; other site 1134782001041 Walker B; other site 1134782001042 D-loop; other site 1134782001043 H-loop/switch region; other site 1134782001044 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1134782001045 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1134782001046 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1134782001047 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782001048 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782001049 DNA binding residues [nucleotide binding] 1134782001050 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1134782001051 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1134782001052 dimerization interface [polypeptide binding]; other site 1134782001053 ligand binding site [chemical binding]; other site 1134782001054 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782001055 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1134782001056 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1134782001057 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 1134782001058 dimerization interface [polypeptide binding]; other site 1134782001059 ligand binding site [chemical binding]; other site 1134782001060 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782001061 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 1134782001062 TM-ABC transporter signature motif; other site 1134782001063 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1134782001064 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1134782001065 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 1134782001066 TM-ABC transporter signature motif; other site 1134782001067 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 1134782001068 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1134782001069 Walker A/P-loop; other site 1134782001070 ATP binding site [chemical binding]; other site 1134782001071 Q-loop/lid; other site 1134782001072 ABC transporter signature motif; other site 1134782001073 Walker B; other site 1134782001074 D-loop; other site 1134782001075 H-loop/switch region; other site 1134782001076 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 1134782001077 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1134782001078 Walker A/P-loop; other site 1134782001079 ATP binding site [chemical binding]; other site 1134782001080 Q-loop/lid; other site 1134782001081 ABC transporter signature motif; other site 1134782001082 Walker B; other site 1134782001083 D-loop; other site 1134782001084 H-loop/switch region; other site 1134782001085 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782001086 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1134782001087 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1134782001088 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1134782001089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001090 dimer interface [polypeptide binding]; other site 1134782001091 conserved gate region; other site 1134782001092 putative PBP binding loops; other site 1134782001093 ABC-ATPase subunit interface; other site 1134782001094 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1134782001095 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001096 dimer interface [polypeptide binding]; other site 1134782001097 conserved gate region; other site 1134782001098 putative PBP binding loops; other site 1134782001099 ABC-ATPase subunit interface; other site 1134782001100 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1134782001101 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1134782001102 Walker A/P-loop; other site 1134782001103 ATP binding site [chemical binding]; other site 1134782001104 Q-loop/lid; other site 1134782001105 ABC transporter signature motif; other site 1134782001106 Walker B; other site 1134782001107 D-loop; other site 1134782001108 H-loop/switch region; other site 1134782001109 TOBE domain; Region: TOBE_2; pfam08402 1134782001110 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1134782001111 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1134782001112 putative active site [active] 1134782001113 catalytic site [active] 1134782001114 putative metal binding site [ion binding]; other site 1134782001115 hypothetical protein; Provisional; Region: PRK10350 1134782001116 gamma-glutamyltranspeptidase; Reviewed; Region: ggt; PRK09615 1134782001117 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 1134782001118 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 1134782001119 putative acetyltransferase YhhY; Provisional; Region: PRK10140 1134782001120 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782001121 Coenzyme A binding pocket [chemical binding]; other site 1134782001122 putative oxidoreductase; Provisional; Region: PRK10206 1134782001123 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782001124 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1134782001125 Pirin-related protein [General function prediction only]; Region: COG1741 1134782001126 Pirin; Region: Pirin; pfam02678 1134782001127 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1134782001128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782001129 DNA binding site [nucleotide binding] 1134782001130 domain linker motif; other site 1134782001131 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1134782001132 putative ligand binding site [chemical binding]; other site 1134782001133 putative dimerization interface [polypeptide binding]; other site 1134782001134 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1134782001135 ATP-binding site [chemical binding]; other site 1134782001136 Gluconate-6-phosphate binding site [chemical binding]; other site 1134782001137 Shikimate kinase; Region: SKI; pfam01202 1134782001138 low affinity gluconate transporter; Provisional; Region: PRK10472 1134782001139 gluconate transporter; Region: gntP; TIGR00791 1134782001140 putative antibiotic transporter; Provisional; Region: PRK10739 1134782001141 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1134782001142 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1134782001143 glycogen branching enzyme; Provisional; Region: PRK05402 1134782001144 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1134782001145 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1134782001146 active site 1134782001147 catalytic site [active] 1134782001148 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1134782001149 glycogen debranching enzyme; Provisional; Region: PRK03705 1134782001150 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1134782001151 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1134782001152 active site 1134782001153 catalytic site [active] 1134782001154 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1134782001155 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1134782001156 ligand binding site; other site 1134782001157 oligomer interface; other site 1134782001158 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1134782001159 sulfate 1 binding site; other site 1134782001160 glycogen synthase; Provisional; Region: glgA; PRK00654 1134782001161 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1134782001162 ADP-binding pocket [chemical binding]; other site 1134782001163 homodimer interface [polypeptide binding]; other site 1134782001164 glycogen phosphorylase; Provisional; Region: PRK14986 1134782001165 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1134782001166 homodimer interface [polypeptide binding]; other site 1134782001167 active site pocket [active] 1134782001168 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 1134782001169 hypothetical protein; Provisional; Region: PRK09781; cl08057 1134782001170 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1134782001171 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1134782001172 active site residue [active] 1134782001173 intramembrane serine protease GlpG; Provisional; Region: PRK10907 1134782001174 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1134782001175 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1134782001176 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1134782001177 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782001178 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782001179 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 1134782001180 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 1134782001181 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782001182 Walker A motif; other site 1134782001183 ATP binding site [chemical binding]; other site 1134782001184 Walker B motif; other site 1134782001185 arginine finger; other site 1134782001186 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 1134782001187 hypothetical protein; Reviewed; Region: PRK09588 1134782001188 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 1134782001189 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 1134782001190 putative active site [active] 1134782001191 transcriptional regulator MalT; Provisional; Region: PRK04841 1134782001192 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782001193 DNA binding residues [nucleotide binding] 1134782001194 maltodextrin phosphorylase; Provisional; Region: PRK14985 1134782001195 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1134782001196 homodimer interface [polypeptide binding]; other site 1134782001197 active site pocket [active] 1134782001198 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1134782001199 4-alpha-glucanotransferase; Region: malQ; TIGR00217 1134782001200 high-affinity gluconate transporter; Provisional; Region: PRK14984 1134782001201 gluconate transporter; Region: gntP; TIGR00791 1134782001202 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1134782001203 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1134782001204 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1134782001205 DNA utilization protein GntX; Provisional; Region: PRK11595 1134782001206 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782001207 active site 1134782001208 carboxylesterase BioH; Provisional; Region: PRK10349 1134782001209 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 1134782001210 putative transposase; Provisional; Region: PRK09857 1134782001211 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1134782001212 ferrous iron transport protein FeoC; Provisional; Region: PRK15431 1134782001213 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1134782001214 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1134782001215 G1 box; other site 1134782001216 GTP/Mg2+ binding site [chemical binding]; other site 1134782001217 Switch I region; other site 1134782001218 G2 box; other site 1134782001219 G3 box; other site 1134782001220 Switch II region; other site 1134782001221 G4 box; other site 1134782001222 G5 box; other site 1134782001223 Nucleoside recognition; Region: Gate; pfam07670 1134782001224 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1134782001225 Nucleoside recognition; Region: Gate; pfam07670 1134782001226 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 1134782001227 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1134782001228 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1134782001229 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1134782001230 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1134782001231 RNA binding site [nucleotide binding]; other site 1134782001232 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1134782001233 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1134782001234 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1134782001235 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1134782001236 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782001237 active site 1134782001238 phosphorylation site [posttranslational modification] 1134782001239 intermolecular recognition site; other site 1134782001240 dimerization interface [polypeptide binding]; other site 1134782001241 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782001242 DNA binding site [nucleotide binding] 1134782001243 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1134782001244 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782001245 dimerization interface [polypeptide binding]; other site 1134782001246 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782001247 dimer interface [polypeptide binding]; other site 1134782001248 phosphorylation site [posttranslational modification] 1134782001249 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782001250 ATP binding site [chemical binding]; other site 1134782001251 G-X-G motif; other site 1134782001252 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782001253 non-specific DNA binding site [nucleotide binding]; other site 1134782001254 salt bridge; other site 1134782001255 sequence-specific DNA binding site [nucleotide binding]; other site 1134782001256 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1134782001257 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1134782001258 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1134782001259 active site 1134782001260 substrate-binding site [chemical binding]; other site 1134782001261 metal-binding site [ion binding] 1134782001262 ATP binding site [chemical binding]; other site 1134782001263 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 1134782001264 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1134782001265 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1134782001266 dimerization interface [polypeptide binding]; other site 1134782001267 domain crossover interface; other site 1134782001268 redox-dependent activation switch; other site 1134782001269 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782001270 RNA binding surface [nucleotide binding]; other site 1134782001271 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1134782001272 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782001273 motif II; other site 1134782001274 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 1134782001275 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1134782001276 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1134782001277 ADP-ribose binding site [chemical binding]; other site 1134782001278 dimer interface [polypeptide binding]; other site 1134782001279 active site 1134782001280 nudix motif; other site 1134782001281 metal binding site [ion binding]; metal-binding site 1134782001282 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1134782001283 Transglycosylase; Region: Transgly; pfam00912 1134782001284 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1134782001285 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 1134782001286 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 1134782001287 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1134782001288 Protein of unknown function (DUF2531); Region: DUF2531; pfam10748 1134782001289 outer membrane porin HofQ; Provisional; Region: hofQ; PRK10560 1134782001290 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1134782001291 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1134782001292 shikimate kinase; Reviewed; Region: aroK; PRK00131 1134782001293 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1134782001294 ADP binding site [chemical binding]; other site 1134782001295 magnesium binding site [ion binding]; other site 1134782001296 putative shikimate binding site; other site 1134782001297 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1134782001298 active site 1134782001299 dimer interface [polypeptide binding]; other site 1134782001300 metal binding site [ion binding]; metal-binding site 1134782001301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 1134782001302 cell division protein DamX; Validated; Region: PRK10905 1134782001303 DNA adenine methylase; Provisional; Region: PRK10904 1134782001304 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1134782001305 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1134782001306 substrate binding site [chemical binding]; other site 1134782001307 hexamer interface [polypeptide binding]; other site 1134782001308 metal binding site [ion binding]; metal-binding site 1134782001309 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1134782001310 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782001311 motif II; other site 1134782001312 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1134782001313 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1134782001314 active site 1134782001315 HIGH motif; other site 1134782001316 dimer interface [polypeptide binding]; other site 1134782001317 KMSKS motif; other site 1134782001318 PRD domain protein EF_0829/AHA_3910; Region: EF_0829; TIGR03582 1134782001319 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX; Region: PLPDE_III_yhfX_like; cd06811 1134782001320 dimer interface [polypeptide binding]; other site 1134782001321 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 1134782001322 active site 1134782001323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782001324 substrate binding site [chemical binding]; other site 1134782001325 catalytic residue [active] 1134782001326 putative mutase; Provisional; Region: PRK12383 1134782001327 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; COG1015 1134782001328 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1134782001329 active site 1134782001330 substrate binding pocket [chemical binding]; other site 1134782001331 homodimer interaction site [polypeptide binding]; other site 1134782001332 Protein of unknown function DUF2620; Region: DUF2620; pfam10941 1134782001333 Protein of unknown function; Region: YhfT; pfam10797 1134782001334 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1134782001335 DNA topoisomerase III, bacteria and conjugative plasmid; Region: topB; TIGR01056 1134782001336 DNA-binding transcriptional regulator FrlR; Provisional; Region: PRK11402 1134782001337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782001338 DNA-binding site [nucleotide binding]; DNA binding site 1134782001339 UTRA domain; Region: UTRA; pfam07702 1134782001340 Fructoselysine kinase-like. Fructoselysine is a fructoseamine formed by glycation, a non-enzymatic reaction of glucose with a primary amine followed by an Amadori rearrangement, resulting in a protein that is modified at the amino terminus and at the...; Region: Fructoselysine_kinase_like; cd01940 1134782001341 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782001342 substrate binding site [chemical binding]; other site 1134782001343 ATP binding site [chemical binding]; other site 1134782001344 fructoselysine 3-epimerase; Provisional; Region: PRK09856 1134782001345 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1134782001346 AP (apurinic/apyrimidinic) site pocket; other site 1134782001347 DNA interaction; other site 1134782001348 Metal-binding active site; metal-binding site 1134782001349 fructoselysine-6-P-deglycase; Provisional; Region: frlB; PRK11382 1134782001350 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1134782001351 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1134782001352 dimer interface [polypeptide binding]; other site 1134782001353 active site 1134782001354 putative fructoselysine transporter; Provisional; Region: frlA; PRK11357 1134782001355 hypothetical protein; Provisional; Region: PHA02764 1134782001356 Protein of unknown function (DUF4223); Region: DUF4223; pfam13978 1134782001357 siroheme synthase; Provisional; Region: cysG; PRK10637 1134782001358 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1134782001359 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1134782001360 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1134782001361 active site 1134782001362 SAM binding site [chemical binding]; other site 1134782001363 homodimer interface [polypeptide binding]; other site 1134782001364 nitrite transporter NirC; Provisional; Region: PRK11562 1134782001365 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 1134782001366 nitrite reductase subunit NirD; Provisional; Region: PRK14989 1134782001367 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782001368 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1134782001369 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1134782001370 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1134782001371 putative transporter; Provisional; Region: PRK03699 1134782001372 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782001373 putative substrate translocation pore; other site 1134782001374 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1134782001375 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1134782001376 substrate binding site [chemical binding]; other site 1134782001377 hypothetical protein; Provisional; Region: PRK10204 1134782001378 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 1134782001379 cell filamentation protein Fic; Provisional; Region: PRK10347 1134782001380 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1134782001381 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1134782001382 glutamine binding [chemical binding]; other site 1134782001383 catalytic triad [active] 1134782001384 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1134782001385 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782001386 inhibitor-cofactor binding pocket; inhibition site 1134782001387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782001388 catalytic residue [active] 1134782001389 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1134782001390 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1134782001391 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782001392 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1134782001393 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1134782001394 ligand binding site [chemical binding]; other site 1134782001395 flexible hinge region; other site 1134782001396 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1134782001397 putative switch regulator; other site 1134782001398 non-specific DNA interactions [nucleotide binding]; other site 1134782001399 DNA binding site [nucleotide binding] 1134782001400 sequence specific DNA binding site [nucleotide binding]; other site 1134782001401 putative cAMP binding site [chemical binding]; other site 1134782001402 hypothetical protein; Provisional; Region: PRK10738 1134782001403 Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes. PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to...; Region: PRK_like; cd02029 1134782001404 active site 1134782001405 hypothetical protein; Provisional; Region: PRK04966 1134782001406 putative hydrolase; Provisional; Region: PRK10985 1134782001407 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1134782001408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782001409 Walker A/P-loop; other site 1134782001410 ATP binding site [chemical binding]; other site 1134782001411 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782001412 ABC transporter signature motif; other site 1134782001413 Walker B; other site 1134782001414 D-loop; other site 1134782001415 ABC transporter; Region: ABC_tran_2; pfam12848 1134782001416 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782001417 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 1134782001418 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1134782001419 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1134782001420 TrkA-N domain; Region: TrkA_N; pfam02254 1134782001421 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]; Region: COG3529 1134782001422 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1134782001423 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1134782001424 phi X174 lysis protein; Provisional; Region: PRK02793 1134782001425 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 1134782001426 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1134782001427 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1134782001428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1134782001429 YheO-like PAS domain; Region: PAS_6; pfam08348 1134782001430 HTH domain; Region: HTH_22; pfam13309 1134782001431 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1134782001432 sulfur relay protein TusC; Validated; Region: PRK00211 1134782001433 sulfur transfer complex subunit TusB; Provisional; Region: PRK13510 1134782001434 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1134782001435 S17 interaction site [polypeptide binding]; other site 1134782001436 S8 interaction site; other site 1134782001437 16S rRNA interaction site [nucleotide binding]; other site 1134782001438 streptomycin interaction site [chemical binding]; other site 1134782001439 23S rRNA interaction site [nucleotide binding]; other site 1134782001440 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1134782001441 30S ribosomal protein S7; Validated; Region: PRK05302 1134782001442 elongation factor G; Reviewed; Region: PRK00007 1134782001443 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1134782001444 G1 box; other site 1134782001445 putative GEF interaction site [polypeptide binding]; other site 1134782001446 GTP/Mg2+ binding site [chemical binding]; other site 1134782001447 Switch I region; other site 1134782001448 G2 box; other site 1134782001449 G3 box; other site 1134782001450 Switch II region; other site 1134782001451 G4 box; other site 1134782001452 G5 box; other site 1134782001453 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1134782001454 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1134782001455 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1134782001456 elongation factor Tu; Reviewed; Region: PRK00049 1134782001457 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1134782001458 G1 box; other site 1134782001459 GEF interaction site [polypeptide binding]; other site 1134782001460 GTP/Mg2+ binding site [chemical binding]; other site 1134782001461 Switch I region; other site 1134782001462 G2 box; other site 1134782001463 G3 box; other site 1134782001464 Switch II region; other site 1134782001465 G4 box; other site 1134782001466 G5 box; other site 1134782001467 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1134782001468 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1134782001469 Antibiotic Binding Site [chemical binding]; other site 1134782001470 bacterioferritin-associated ferredoxin; Provisional; Region: PRK10509 1134782001471 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1134782001472 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1134782001473 heme binding site [chemical binding]; other site 1134782001474 ferroxidase pore; other site 1134782001475 ferroxidase diiron center [ion binding]; other site 1134782001476 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1134782001477 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1134782001478 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1134782001479 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1134782001480 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1134782001481 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1134782001482 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1134782001483 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1134782001484 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1134782001485 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1134782001486 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1134782001487 protein-rRNA interface [nucleotide binding]; other site 1134782001488 putative translocon binding site; other site 1134782001489 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1134782001490 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1134782001491 G-X-X-G motif; other site 1134782001492 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1134782001493 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1134782001494 23S rRNA interface [nucleotide binding]; other site 1134782001495 5S rRNA interface [nucleotide binding]; other site 1134782001496 putative antibiotic binding site [chemical binding]; other site 1134782001497 L25 interface [polypeptide binding]; other site 1134782001498 L27 interface [polypeptide binding]; other site 1134782001499 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1134782001500 23S rRNA interface [nucleotide binding]; other site 1134782001501 putative translocon interaction site; other site 1134782001502 signal recognition particle (SRP54) interaction site; other site 1134782001503 L23 interface [polypeptide binding]; other site 1134782001504 trigger factor interaction site; other site 1134782001505 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1134782001506 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1134782001507 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1134782001508 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1134782001509 RNA binding site [nucleotide binding]; other site 1134782001510 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1134782001511 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1134782001512 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1134782001513 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1134782001514 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1134782001515 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1134782001516 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1134782001517 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1134782001518 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1134782001519 23S rRNA interface [nucleotide binding]; other site 1134782001520 5S rRNA interface [nucleotide binding]; other site 1134782001521 L27 interface [polypeptide binding]; other site 1134782001522 L5 interface [polypeptide binding]; other site 1134782001523 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1134782001524 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1134782001525 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1134782001526 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1134782001527 23S rRNA binding site [nucleotide binding]; other site 1134782001528 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1134782001529 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1134782001530 SecY translocase; Region: SecY; pfam00344 1134782001531 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1134782001532 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1134782001533 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1134782001534 30S ribosomal protein S11; Validated; Region: PRK05309 1134782001535 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1134782001536 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1134782001537 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782001538 RNA binding surface [nucleotide binding]; other site 1134782001539 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1134782001540 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1134782001541 alphaNTD homodimer interface [polypeptide binding]; other site 1134782001542 alphaNTD - beta interaction site [polypeptide binding]; other site 1134782001543 alphaNTD - beta' interaction site [polypeptide binding]; other site 1134782001544 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1134782001545 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1134782001546 hypothetical protein; Provisional; Region: PRK10203 1134782001547 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1134782001548 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1134782001549 DNA binding residues [nucleotide binding] 1134782001550 dimer interface [polypeptide binding]; other site 1134782001551 metal binding site [ion binding]; metal-binding site 1134782001552 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3036 1134782001553 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1134782001554 Large-conductance mechanosensitive channel, MscL; Region: MscL; pfam01741 1134782001555 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1134782001556 TrkA-N domain; Region: TrkA_N; pfam02254 1134782001557 TrkA-C domain; Region: TrkA_C; pfam02080 1134782001558 TrkA-N domain; Region: TrkA_N; pfam02254 1134782001559 TrkA-C domain; Region: TrkA_C; pfam02080 1134782001560 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 1134782001561 putative RNA binding site [nucleotide binding]; other site 1134782001562 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1134782001563 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782001564 S-adenosylmethionine binding site [chemical binding]; other site 1134782001565 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1134782001566 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1134782001567 putative active site [active] 1134782001568 substrate binding site [chemical binding]; other site 1134782001569 putative cosubstrate binding site; other site 1134782001570 catalytic site [active] 1134782001571 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1134782001572 substrate binding site [chemical binding]; other site 1134782001573 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1134782001574 active site 1134782001575 catalytic residues [active] 1134782001576 metal binding site [ion binding]; metal-binding site 1134782001577 hypothetical protein; Provisional; Region: PRK10736 1134782001578 DNA protecting protein DprA; Region: dprA; TIGR00732 1134782001579 hypothetical protein; Validated; Region: PRK03430 1134782001580 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1134782001581 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1134782001582 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1134782001583 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1134782001584 tRNA(ANN) t(6)A37 threonylcarbamoyladenosine modification protein; Provisional; Region: PRK10634 1134782001585 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 1134782001586 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1134782001587 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1134782001588 shikimate binding site; other site 1134782001589 NAD(P) binding site [chemical binding]; other site 1134782001590 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1134782001591 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1134782001592 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1134782001593 trimer interface [polypeptide binding]; other site 1134782001594 putative metal binding site [ion binding]; other site 1134782001595 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1134782001596 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1134782001597 Walker A/P-loop; other site 1134782001598 ATP binding site [chemical binding]; other site 1134782001599 Q-loop/lid; other site 1134782001600 ABC transporter signature motif; other site 1134782001601 Walker B; other site 1134782001602 D-loop; other site 1134782001603 H-loop/switch region; other site 1134782001604 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782001605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001606 dimer interface [polypeptide binding]; other site 1134782001607 conserved gate region; other site 1134782001608 putative PBP binding loops; other site 1134782001609 ABC-ATPase subunit interface; other site 1134782001610 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1134782001611 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001612 conserved gate region; other site 1134782001613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782001614 dimer interface [polypeptide binding]; other site 1134782001615 conserved gate region; other site 1134782001616 putative PBP binding loops; other site 1134782001617 ABC-ATPase subunit interface; other site 1134782001618 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1134782001619 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782001620 substrate binding pocket [chemical binding]; other site 1134782001621 membrane-bound complex binding site; other site 1134782001622 hinge residues; other site 1134782001623 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1134782001624 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1134782001625 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782001626 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1134782001627 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782001628 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782001629 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 1134782001630 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782001631 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1134782001632 Protein of unknown function (DUF2556); Region: DUF2556; pfam10831 1134782001633 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1134782001634 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782001635 DNA methylase; Region: N6_N4_Mtase; pfam01555 1134782001636 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1134782001637 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1134782001638 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1134782001639 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1134782001640 FMN binding site [chemical binding]; other site 1134782001641 active site 1134782001642 catalytic residues [active] 1134782001643 substrate binding site [chemical binding]; other site 1134782001644 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1134782001645 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1134782001646 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1134782001647 Na binding site [ion binding]; other site 1134782001648 hypothetical protein; Provisional; Region: PRK10633 1134782001649 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1134782001650 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1134782001651 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1134782001652 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1134782001653 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1134782001654 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1134782001655 carboxyltransferase (CT) interaction site; other site 1134782001656 biotinylation site [posttranslational modification]; other site 1134782001657 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 1134782001658 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1134782001659 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1134782001660 NADP binding site [chemical binding]; other site 1134782001661 dimer interface [polypeptide binding]; other site 1134782001662 regulatory protein CsrD; Provisional; Region: PRK11059 1134782001663 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782001664 metal binding site [ion binding]; metal-binding site 1134782001665 active site 1134782001666 I-site; other site 1134782001667 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782001668 rod shape-determining protein MreB; Provisional; Region: PRK13927 1134782001669 MreB and similar proteins; Region: MreB_like; cd10225 1134782001670 nucleotide binding site [chemical binding]; other site 1134782001671 Mg binding site [ion binding]; other site 1134782001672 putative protofilament interaction site [polypeptide binding]; other site 1134782001673 RodZ interaction site [polypeptide binding]; other site 1134782001674 rod shape-determining protein MreC; Region: mreC; TIGR00219 1134782001675 rod shape-determining protein MreC; Region: MreC; pfam04085 1134782001676 rod shape-determining protein MreD; Provisional; Region: PRK11060 1134782001677 Maf-like protein; Region: Maf; pfam02545 1134782001678 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1134782001679 active site 1134782001680 dimer interface [polypeptide binding]; other site 1134782001681 ribonuclease G; Provisional; Region: PRK11712 1134782001682 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1134782001683 homodimer interface [polypeptide binding]; other site 1134782001684 oligonucleotide binding site [chemical binding]; other site 1134782001685 hypothetical protein; Provisional; Region: PRK10899 1134782001686 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1134782001687 protease TldD; Provisional; Region: tldD; PRK10735 1134782001688 transcriptional regulator; Provisional; Region: PRK10632 1134782001689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782001690 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1134782001691 putative effector binding pocket; other site 1134782001692 dimerization interface [polypeptide binding]; other site 1134782001693 efflux system membrane protein; Provisional; Region: PRK11594 1134782001694 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1134782001695 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782001696 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782001697 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 1134782001698 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782001699 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 1134782001700 RNAase interaction site [polypeptide binding]; other site 1134782001701 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782001702 arginine repressor; Provisional; Region: PRK05066 1134782001703 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1134782001704 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1134782001705 malate dehydrogenase; Provisional; Region: PRK05086 1134782001706 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1134782001707 NAD binding site [chemical binding]; other site 1134782001708 dimerization interface [polypeptide binding]; other site 1134782001709 Substrate binding site [chemical binding]; other site 1134782001710 serine endoprotease; Provisional; Region: PRK10898 1134782001711 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1134782001712 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782001713 serine endoprotease; Provisional; Region: PRK10139 1134782001714 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1134782001715 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782001716 protein binding site [polypeptide binding]; other site 1134782001717 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782001718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1134782001719 hypothetical protein; Provisional; Region: PRK11677 1134782001720 Predicted ATPase [General function prediction only]; Region: COG1485 1134782001721 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1134782001722 23S rRNA interface [nucleotide binding]; other site 1134782001723 L3 interface [polypeptide binding]; other site 1134782001724 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1134782001725 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1134782001726 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1134782001727 C-terminal domain interface [polypeptide binding]; other site 1134782001728 putative GSH binding site (G-site) [chemical binding]; other site 1134782001729 dimer interface [polypeptide binding]; other site 1134782001730 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1134782001731 dimer interface [polypeptide binding]; other site 1134782001732 N-terminal domain interface [polypeptide binding]; other site 1134782001733 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1134782001734 putative cryptic C4-dicarboxylate transporter DcuD; Provisional; Region: PRK09804 1134782001735 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1134782001736 transcriptional regulator NanR; Provisional; Region: PRK03837 1134782001737 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782001738 DNA-binding site [nucleotide binding]; DNA binding site 1134782001739 FCD domain; Region: FCD; pfam07729 1134782001740 N-acetylneuraminate lyase; Region: nanA; TIGR00683 1134782001741 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1134782001742 inhibitor site; inhibition site 1134782001743 active site 1134782001744 dimer interface [polypeptide binding]; other site 1134782001745 catalytic residue [active] 1134782001746 putative sialic acid transporter; Provisional; Region: PRK03893 1134782001747 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782001748 putative substrate translocation pore; other site 1134782001749 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1134782001750 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1134782001751 putative active site cavity [active] 1134782001752 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1134782001753 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782001754 nucleotide binding site [chemical binding]; other site 1134782001755 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1134782001756 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1134782001757 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 1134782001758 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1134782001759 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782001760 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782001761 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1134782001762 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1134782001763 active site 1134782001764 dimer interface [polypeptide binding]; other site 1134782001765 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1134782001766 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1134782001767 active site 1134782001768 FMN binding site [chemical binding]; other site 1134782001769 substrate binding site [chemical binding]; other site 1134782001770 3Fe-4S cluster binding site [ion binding]; other site 1134782001771 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1134782001772 domain interface; other site 1134782001773 radical SAM protein, TIGR01212 family; Region: TIGR01212 1134782001774 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782001775 FeS/SAM binding site; other site 1134782001776 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1134782001777 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782001778 putative active site [active] 1134782001779 heme pocket [chemical binding]; other site 1134782001780 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782001781 dimer interface [polypeptide binding]; other site 1134782001782 phosphorylation site [posttranslational modification] 1134782001783 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782001784 ATP binding site [chemical binding]; other site 1134782001785 Mg2+ binding site [ion binding]; other site 1134782001786 G-X-G motif; other site 1134782001787 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782001788 active site 1134782001789 phosphorylation site [posttranslational modification] 1134782001790 intermolecular recognition site; other site 1134782001791 dimerization interface [polypeptide binding]; other site 1134782001792 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782001793 putative binding surface; other site 1134782001794 active site 1134782001795 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1134782001796 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1134782001797 conserved cys residue [active] 1134782001798 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1134782001799 Transglycosylase; Region: Transgly; cl17702 1134782001800 hypothetical protein; Provisional; Region: PRK10345 1134782001801 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782001802 dimerization domain swap beta strand [polypeptide binding]; other site 1134782001803 regulatory protein interface [polypeptide binding]; other site 1134782001804 active site 1134782001805 regulatory phosphorylation site [posttranslational modification]; other site 1134782001806 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 1134782001807 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782001808 active site 1134782001809 phosphorylation site [posttranslational modification] 1134782001810 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1134782001811 30S subunit binding site; other site 1134782001812 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1134782001813 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1134782001814 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1134782001815 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1134782001816 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 1134782001817 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1134782001818 Walker A/P-loop; other site 1134782001819 ATP binding site [chemical binding]; other site 1134782001820 Q-loop/lid; other site 1134782001821 ABC transporter signature motif; other site 1134782001822 Walker B; other site 1134782001823 D-loop; other site 1134782001824 H-loop/switch region; other site 1134782001825 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 1134782001826 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1134782001827 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 1134782001828 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1134782001829 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 1134782001830 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1134782001831 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1134782001832 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1134782001833 putative active site [active] 1134782001834 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1134782001835 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1134782001836 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1134782001837 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1134782001838 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1134782001839 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1134782001840 Walker A/P-loop; other site 1134782001841 ATP binding site [chemical binding]; other site 1134782001842 Q-loop/lid; other site 1134782001843 ABC transporter signature motif; other site 1134782001844 Walker B; other site 1134782001845 D-loop; other site 1134782001846 H-loop/switch region; other site 1134782001847 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1134782001848 conserved hypothetical integral membrane protein; Region: TIGR00056 1134782001849 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1134782001850 mce related protein; Region: MCE; pfam02470 1134782001851 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 1134782001852 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1134782001853 anti sigma factor interaction site; other site 1134782001854 regulatory phosphorylation site [posttranslational modification]; other site 1134782001855 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1134782001856 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1134782001857 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1134782001858 hinge; other site 1134782001859 active site 1134782001860 DNA-binding transcriptional regulator Nlp; Provisional; Region: PRK10344 1134782001861 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1134782001862 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1134782001863 substrate binding pocket [chemical binding]; other site 1134782001864 chain length determination region; other site 1134782001865 substrate-Mg2+ binding site; other site 1134782001866 catalytic residues [active] 1134782001867 aspartate-rich region 1; other site 1134782001868 active site lid residues [active] 1134782001869 aspartate-rich region 2; other site 1134782001870 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1134782001871 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1134782001872 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1134782001873 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1134782001874 EamA-like transporter family; Region: EamA; pfam00892 1134782001875 EamA-like transporter family; Region: EamA; pfam00892 1134782001876 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1134782001877 GTP1/OBG; Region: GTP1_OBG; pfam01018 1134782001878 Obg GTPase; Region: Obg; cd01898 1134782001879 G1 box; other site 1134782001880 GTP/Mg2+ binding site [chemical binding]; other site 1134782001881 Switch I region; other site 1134782001882 G2 box; other site 1134782001883 G3 box; other site 1134782001884 Switch II region; other site 1134782001885 G4 box; other site 1134782001886 G5 box; other site 1134782001887 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1134782001888 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1134782001889 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1134782001890 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1134782001891 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1134782001892 RNA-binding protein YhbY; Provisional; Region: PRK10343 1134782001893 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1134782001894 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782001895 S-adenosylmethionine binding site [chemical binding]; other site 1134782001896 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1134782001897 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782001898 Walker A motif; other site 1134782001899 ATP binding site [chemical binding]; other site 1134782001900 Walker B motif; other site 1134782001901 arginine finger; other site 1134782001902 Peptidase family M41; Region: Peptidase_M41; pfam01434 1134782001903 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1134782001904 dihydropteroate synthase; Region: DHPS; TIGR01496 1134782001905 substrate binding pocket [chemical binding]; other site 1134782001906 dimer interface [polypeptide binding]; other site 1134782001907 inhibitor binding site; inhibition site 1134782001908 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1134782001909 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1134782001910 active site 1134782001911 substrate binding site [chemical binding]; other site 1134782001912 metal binding site [ion binding]; metal-binding site 1134782001913 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1134782001914 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1134782001915 Sulfatase; Region: Sulfatase; pfam00884 1134782001916 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1134782001917 ANP binding site [chemical binding]; other site 1134782001918 Substrate Binding Site II [chemical binding]; other site 1134782001919 Substrate Binding Site I [chemical binding]; other site 1134782001920 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1134782001921 Sm and related proteins; Region: Sm_like; cl00259 1134782001922 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1134782001923 putative oligomer interface [polypeptide binding]; other site 1134782001924 putative RNA binding site [nucleotide binding]; other site 1134782001925 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1134782001926 NusA N-terminal domain; Region: NusA_N; pfam08529 1134782001927 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1134782001928 RNA binding site [nucleotide binding]; other site 1134782001929 homodimer interface [polypeptide binding]; other site 1134782001930 NusA-like KH domain; Region: KH_5; pfam13184 1134782001931 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1134782001932 G-X-X-G motif; other site 1134782001933 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1134782001934 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1134782001935 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1134782001936 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1134782001937 translation initiation factor IF-2; Region: IF-2; TIGR00487 1134782001938 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1134782001939 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1134782001940 G1 box; other site 1134782001941 putative GEF interaction site [polypeptide binding]; other site 1134782001942 GTP/Mg2+ binding site [chemical binding]; other site 1134782001943 Switch I region; other site 1134782001944 G2 box; other site 1134782001945 G3 box; other site 1134782001946 Switch II region; other site 1134782001947 G4 box; other site 1134782001948 G5 box; other site 1134782001949 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1134782001950 Translation-initiation factor 2; Region: IF-2; pfam11987 1134782001951 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1134782001952 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1134782001953 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1134782001954 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1134782001955 RNA binding site [nucleotide binding]; other site 1134782001956 active site 1134782001957 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1134782001958 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1134782001959 16S/18S rRNA binding site [nucleotide binding]; other site 1134782001960 S13e-L30e interaction site [polypeptide binding]; other site 1134782001961 25S rRNA binding site [nucleotide binding]; other site 1134782001962 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1134782001963 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1134782001964 RNase E interface [polypeptide binding]; other site 1134782001965 trimer interface [polypeptide binding]; other site 1134782001966 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1134782001967 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1134782001968 RNase E interface [polypeptide binding]; other site 1134782001969 trimer interface [polypeptide binding]; other site 1134782001970 active site 1134782001971 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1134782001972 putative nucleic acid binding region [nucleotide binding]; other site 1134782001973 G-X-X-G motif; other site 1134782001974 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1134782001975 RNA binding site [nucleotide binding]; other site 1134782001976 domain interface; other site 1134782001977 lipoprotein NlpI; Provisional; Region: PRK11189 1134782001978 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782001979 binding surface 1134782001980 TPR motif; other site 1134782001981 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 1134782001982 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1134782001983 ATP binding site [chemical binding]; other site 1134782001984 Mg++ binding site [ion binding]; other site 1134782001985 motif III; other site 1134782001986 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782001987 nucleotide binding region [chemical binding]; other site 1134782001988 ATP-binding site [chemical binding]; other site 1134782001989 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1134782001990 putative RNA binding site [nucleotide binding]; other site 1134782001991 tryptophan permease; Provisional; Region: PRK10483 1134782001992 aromatic amino acid transport protein; Region: araaP; TIGR00837 1134782001993 hypothetical protein; Provisional; Region: PRK10508 1134782001994 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1134782001995 putative protease; Provisional; Region: PRK15447 1134782001996 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1134782001997 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1134782001998 Peptidase family U32; Region: Peptidase_U32; pfam01136 1134782001999 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1134782002000 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1134782002001 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782002002 Coenzyme A binding pocket [chemical binding]; other site 1134782002003 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1134782002004 GIY-YIG motif/motif A; other site 1134782002005 putative active site [active] 1134782002006 putative metal binding site [ion binding]; other site 1134782002007 hypothetical protein; Provisional; Region: PRK03467 1134782002008 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1134782002009 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 1134782002010 proposed catalytic triad [active] 1134782002011 conserved cys residue [active] 1134782002012 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1134782002013 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1134782002014 NAD binding site [chemical binding]; other site 1134782002015 active site 1134782002016 Predicted permease; Region: DUF318; pfam03773 1134782002017 outer membrane lipoprotein; Provisional; Region: PRK11023 1134782002018 BON domain; Region: BON; pfam04972 1134782002019 BON domain; Region: BON; pfam04972 1134782002020 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1134782002021 dimer interface [polypeptide binding]; other site 1134782002022 active site 1134782002023 TIGR00252 family protein; Region: TIGR00252 1134782002024 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1134782002025 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1134782002026 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1134782002027 putative ligand binding site [chemical binding]; other site 1134782002028 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1134782002029 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1134782002030 putative SAM binding site [chemical binding]; other site 1134782002031 putative homodimer interface [polypeptide binding]; other site 1134782002032 Fimbrial protein; Region: Fimbrial; pfam00419 1134782002033 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1134782002034 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782002035 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782002036 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782002037 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1134782002038 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782002039 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782002040 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782002041 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1134782002042 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1134782002043 active site 1134782002044 trimer interface [polypeptide binding]; other site 1134782002045 allosteric site; other site 1134782002046 active site lid [active] 1134782002047 PTS system N-acetylgalactosamine-specific transporter subunit IID; Provisional; Region: PRK09855 1134782002048 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional; Region: PRK09757 1134782002049 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1134782002050 active site 1134782002051 phosphorylation site [posttranslational modification] 1134782002052 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cd00453 1134782002053 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1134782002054 active site 1134782002055 intersubunit interface [polypeptide binding]; other site 1134782002056 zinc binding site [ion binding]; other site 1134782002057 Na+ binding site [ion binding]; other site 1134782002058 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1134782002059 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1134782002060 dimer interface [polypeptide binding]; other site 1134782002061 active site 1134782002062 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 1134782002063 putative active site [active] 1134782002064 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1134782002065 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1134782002066 active site 1134782002067 dimer interface [polypeptide binding]; other site 1134782002068 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1134782002069 active pocket/dimerization site; other site 1134782002070 active site 1134782002071 phosphorylation site [posttranslational modification] 1134782002072 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1134782002073 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1134782002074 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1134782002075 active site 1134782002076 phosphorylation site [posttranslational modification] 1134782002077 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 1134782002078 DNA-binding transcriptional regulator AgaR; Provisional; Region: PRK09802 1134782002079 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782002080 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782002081 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 1134782002082 putative regulator PrlF; Provisional; Region: PRK09974 1134782002083 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 1134782002084 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1134782002085 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1134782002086 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1134782002087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782002088 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782002089 putative substrate translocation pore; other site 1134782002090 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 1134782002091 tartronate semialdehyde reductase; Provisional; Region: garR; PRK11559 1134782002092 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1134782002093 glycerate kinase I; Provisional; Region: PRK10342 1134782002094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782002095 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782002096 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782002097 hypothetical protein; Provisional; Region: PRK09716 1134782002098 DNA-binding transcriptional activator TdcR; Provisional; Region: PRK11424 1134782002099 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 1134782002100 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782002101 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 1134782002102 putative substrate binding pocket [chemical binding]; other site 1134782002103 putative dimerization interface [polypeptide binding]; other site 1134782002104 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1134782002105 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1134782002106 tetramer interface [polypeptide binding]; other site 1134782002107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002108 catalytic residue [active] 1134782002109 threonine/serine transporter TdcC; Provisional; Region: PRK13629 1134782002110 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1134782002111 propionate/acetate kinase; Provisional; Region: PRK12379 1134782002112 Acetokinase family; Region: Acetate_kinase; cl17229 1134782002113 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1134782002114 Pyruvate formate lyase 1; Region: PFL1; cd01678 1134782002115 coenzyme A binding site [chemical binding]; other site 1134782002116 active site 1134782002117 catalytic residues [active] 1134782002118 glycine loop; other site 1134782002119 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1134782002120 homotrimer interaction site [polypeptide binding]; other site 1134782002121 putative active site [active] 1134782002122 L-serine dehydratase TdcG; Provisional; Region: PRK15040 1134782002123 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1134782002124 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1134782002125 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1134782002126 serine transporter; Region: stp; TIGR00814 1134782002127 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1134782002128 Pirin-related protein [General function prediction only]; Region: COG1741 1134782002129 Pirin; Region: Pirin; pfam02678 1134782002130 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782002131 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1134782002132 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782002133 dimerization interface [polypeptide binding]; other site 1134782002134 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782002135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782002136 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782002137 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782002138 Predicted membrane protein [Function unknown]; Region: COG3152 1134782002139 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1134782002140 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1134782002141 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1134782002142 putative dimer interface [polypeptide binding]; other site 1134782002143 N-terminal domain interface [polypeptide binding]; other site 1134782002144 putative substrate binding pocket (H-site) [chemical binding]; other site 1134782002145 Predicted membrane protein [Function unknown]; Region: COG2259 1134782002146 YqjK-like protein; Region: YqjK; pfam13997 1134782002147 Predicted membrane protein [Function unknown]; Region: COG5393 1134782002148 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1134782002149 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 1134782002150 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 1134782002151 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1134782002152 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1134782002153 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 1134782002154 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782002155 DNA-binding site [nucleotide binding]; DNA binding site 1134782002156 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782002157 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1134782002158 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1134782002159 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; pfam04449 1134782002160 fimbrial outer membrane usher protein TcfC; Provisional; Region: PRK15310 1134782002161 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782002162 CblD like pilus biogenesis initiator; Region: CblD; cl06460 1134782002163 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782002164 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782002165 putative substrate translocation pore; other site 1134782002166 Glucuronate isomerase; Region: UxaC; pfam02614 1134782002167 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1134782002168 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1134782002169 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1134782002170 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1134782002171 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1134782002172 serine/threonine transporter SstT; Provisional; Region: PRK13628 1134782002173 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1134782002174 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1134782002175 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1134782002176 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782002177 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1134782002178 putative active site [active] 1134782002179 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1134782002180 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1134782002181 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782002182 S-adenosylmethionine binding site [chemical binding]; other site 1134782002183 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; cl01912 1134782002184 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782002185 non-specific DNA binding site [nucleotide binding]; other site 1134782002186 salt bridge; other site 1134782002187 sequence-specific DNA binding site [nucleotide binding]; other site 1134782002188 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1134782002189 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 1134782002190 active site 1134782002191 FMN binding site [chemical binding]; other site 1134782002192 2,4-decadienoyl-CoA binding site; other site 1134782002193 catalytic residue [active] 1134782002194 4Fe-4S cluster binding site [ion binding]; other site 1134782002195 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1134782002196 alpha-glucosidase; Provisional; Region: PRK10137 1134782002197 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1134782002198 Trehalase; Region: Trehalase; cl17346 1134782002199 inner membrane transporter YjeM; Provisional; Region: PRK15238 1134782002200 cryptic beta-D-galactosidase subunit beta; Reviewed; Region: ebgC; PRK10202 1134782002201 cryptic beta-D-galactosidase subunit alpha; Reviewed; Region: ebgA; PRK10340 1134782002202 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1134782002203 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1134782002204 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1134782002205 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1134782002206 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 1134782002207 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782002208 DNA binding site [nucleotide binding] 1134782002209 domain linker motif; other site 1134782002210 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1134782002211 putative dimerization interface [polypeptide binding]; other site 1134782002212 putative ligand binding site [chemical binding]; other site 1134782002213 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 1134782002214 dimer interface [polypeptide binding]; other site 1134782002215 putative tRNA-binding site [nucleotide binding]; other site 1134782002216 putrescine--2-oxoglutarate aminotransferase; Provisional; Region: PRK11522 1134782002217 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782002218 inhibitor-cofactor binding pocket; inhibition site 1134782002219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002220 catalytic residue [active] 1134782002221 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782002222 PAS fold; Region: PAS_3; pfam08447 1134782002223 putative active site [active] 1134782002224 heme pocket [chemical binding]; other site 1134782002225 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1134782002226 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1134782002227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1134782002228 dimer interface [polypeptide binding]; other site 1134782002229 putative CheW interface [polypeptide binding]; other site 1134782002230 Predicted transcriptional regulators [Transcription]; Region: COG1695 1134782002231 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 1134782002232 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 1134782002233 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 1134782002234 FAD binding pocket [chemical binding]; other site 1134782002235 FAD binding motif [chemical binding]; other site 1134782002236 phosphate binding motif [ion binding]; other site 1134782002237 NAD binding pocket [chemical binding]; other site 1134782002238 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1134782002239 active site 1134782002240 SUMO-1 interface [polypeptide binding]; other site 1134782002241 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1134782002242 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1134782002243 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1134782002244 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1134782002245 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782002246 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1134782002247 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782002248 DNA binding residues [nucleotide binding] 1134782002249 DNA primase; Validated; Region: dnaG; PRK05667 1134782002250 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1134782002251 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1134782002252 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1134782002253 active site 1134782002254 metal binding site [ion binding]; metal-binding site 1134782002255 interdomain interaction site; other site 1134782002256 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1134782002257 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1134782002258 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1134782002259 UGMP family protein; Validated; Region: PRK09604 1134782002260 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1134782002261 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1134782002262 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1134782002263 transmembrane helices; other site 1134782002264 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 1134782002265 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 1134782002266 transcriptional activator TtdR; Provisional; Region: PRK09801 1134782002267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782002268 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1134782002269 putative effector binding pocket; other site 1134782002270 putative dimerization interface [polypeptide binding]; other site 1134782002271 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1134782002272 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1134782002273 homooctamer interface [polypeptide binding]; other site 1134782002274 active site 1134782002275 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1134782002276 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1134782002277 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1134782002278 active site 1134782002279 NTP binding site [chemical binding]; other site 1134782002280 metal binding triad [ion binding]; metal-binding site 1134782002281 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1134782002282 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782002283 Zn2+ binding site [ion binding]; other site 1134782002284 Mg2+ binding site [ion binding]; other site 1134782002285 SH3 domain-containing protein; Provisional; Region: PRK10884 1134782002286 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1134782002287 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1134782002288 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1134782002289 putative active site [active] 1134782002290 putative metal binding residues [ion binding]; other site 1134782002291 signature motif; other site 1134782002292 putative triphosphate binding site [ion binding]; other site 1134782002293 CHAD domain; Region: CHAD; pfam05235 1134782002294 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1134782002295 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1134782002296 metal binding triad; other site 1134782002297 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1134782002298 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1134782002299 metal binding triad; other site 1134782002300 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1134782002301 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1134782002302 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1134782002303 putative ribose interaction site [chemical binding]; other site 1134782002304 putative ADP binding site [chemical binding]; other site 1134782002305 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1134782002306 active site 1134782002307 nucleotide binding site [chemical binding]; other site 1134782002308 HIGH motif; other site 1134782002309 KMSKS motif; other site 1134782002310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 1134782002311 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 1134782002312 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 1134782002313 glycogen synthesis protein GlgS; Provisional; Region: PRK02922 1134782002314 Fimbrial protein; Region: Fimbrial; pfam00419 1134782002315 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1134782002316 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782002317 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782002318 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1134782002319 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782002320 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782002321 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782002322 putative fimbrial protein; Provisional; Region: PRK09733 1134782002323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1134782002324 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1134782002325 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1134782002326 Protein of unknown function (DUF4051); Region: DUF4051; pfam13260 1134782002327 zinc transporter ZupT; Provisional; Region: PRK04201 1134782002328 ZIP Zinc transporter; Region: Zip; pfam02535 1134782002329 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1134782002330 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1134782002331 putative active site [active] 1134782002332 metal binding site [ion binding]; metal-binding site 1134782002333 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1134782002334 hypothetical protein; Provisional; Region: PRK11653 1134782002335 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1134782002336 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1134782002337 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1134782002338 dimer interface [polypeptide binding]; other site 1134782002339 ADP-ribose binding site [chemical binding]; other site 1134782002340 active site 1134782002341 nudix motif; other site 1134782002342 metal binding site [ion binding]; metal-binding site 1134782002343 putative dehydrogenase; Provisional; Region: PRK11039 1134782002344 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1134782002345 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1134782002346 active site 1134782002347 metal binding site [ion binding]; metal-binding site 1134782002348 hexamer interface [polypeptide binding]; other site 1134782002349 esterase YqiA; Provisional; Region: PRK11071 1134782002350 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1134782002351 DNA topoisomerase IV, B subunit, proteobacterial; Region: parE_Gneg; TIGR01055 1134782002352 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782002353 ATP binding site [chemical binding]; other site 1134782002354 Mg2+ binding site [ion binding]; other site 1134782002355 G-X-G motif; other site 1134782002356 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1134782002357 anchoring element; other site 1134782002358 dimer interface [polypeptide binding]; other site 1134782002359 ATP binding site [chemical binding]; other site 1134782002360 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1134782002361 active site 1134782002362 metal binding site [ion binding]; metal-binding site 1134782002363 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1134782002364 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1134782002365 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1134782002366 sensor protein QseC; Provisional; Region: PRK10337 1134782002367 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782002368 dimer interface [polypeptide binding]; other site 1134782002369 phosphorylation site [posttranslational modification] 1134782002370 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782002371 ATP binding site [chemical binding]; other site 1134782002372 Mg2+ binding site [ion binding]; other site 1134782002373 G-X-G motif; other site 1134782002374 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1134782002375 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782002376 active site 1134782002377 phosphorylation site [posttranslational modification] 1134782002378 intermolecular recognition site; other site 1134782002379 dimerization interface [polypeptide binding]; other site 1134782002380 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782002381 DNA binding site [nucleotide binding] 1134782002382 TIGR00156 family protein; Region: TIGR00156 1134782002383 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 1134782002384 DNA topoisomerase IV, A subunit, proteobacterial; Region: parC_Gneg; TIGR01062 1134782002385 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1134782002386 CAP-like domain; other site 1134782002387 active site 1134782002388 primary dimer interface [polypeptide binding]; other site 1134782002389 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782002390 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1134782002391 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1134782002392 putative acyl-acceptor binding pocket; other site 1134782002393 FtsI repressor; Provisional; Region: PRK10883 1134782002394 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1134782002395 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1134782002396 hypothetical protein; Provisional; Region: PRK01254 1134782002397 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1134782002398 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1134782002399 putative outer membrane lipoprotein; Provisional; Region: PRK09973 1134782002400 Protein of unknown function (DUF3828); Region: DUF3828; pfam12883 1134782002401 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782002402 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782002403 active site 1134782002404 catalytic tetrad [active] 1134782002405 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1134782002406 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1134782002407 dimer interface [polypeptide binding]; other site 1134782002408 active site 1134782002409 metal binding site [ion binding]; metal-binding site 1134782002410 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1134782002411 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1134782002412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782002413 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782002414 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1134782002415 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1134782002416 cystathionine beta-lyase; Provisional; Region: PRK08114 1134782002417 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1134782002418 homodimer interface [polypeptide binding]; other site 1134782002419 substrate-cofactor binding pocket; other site 1134782002420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002421 catalytic residue [active] 1134782002422 biopolymer transport protein ExbB; Provisional; Region: PRK10414 1134782002423 biopolymer transport protein ExbD; Provisional; Region: PRK11267 1134782002424 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1134782002425 oxidoreductase; Provisional; Region: PRK07985 1134782002426 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 1134782002427 NAD binding site [chemical binding]; other site 1134782002428 metal binding site [ion binding]; metal-binding site 1134782002429 active site 1134782002430 hypothetical protein; Provisional; Region: PRK05208 1134782002431 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782002432 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782002433 active site 1134782002434 catalytic tetrad [active] 1134782002435 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1134782002436 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1134782002437 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 1134782002438 hydrogenase 2 small subunit; Provisional; Region: PRK10468 1134782002439 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1134782002440 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1134782002441 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 1134782002442 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1134782002443 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 1134782002444 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 1134782002445 hydrogenase 2 large subunit; Provisional; Region: PRK10467 1134782002446 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1134782002447 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 1134782002448 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1134782002449 putative substrate-binding site; other site 1134782002450 nickel binding site [ion binding]; other site 1134782002451 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 1134782002452 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1134782002453 hydrogenase nickel incorporation protein HybF; Provisional; Region: PRK12380 1134782002454 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 1134782002455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782002456 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782002457 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782002458 putative S-transferase; Provisional; Region: PRK11752 1134782002459 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1134782002460 C-terminal domain interface [polypeptide binding]; other site 1134782002461 GSH binding site (G-site) [chemical binding]; other site 1134782002462 dimer interface [polypeptide binding]; other site 1134782002463 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1134782002464 dimer interface [polypeptide binding]; other site 1134782002465 N-terminal domain interface [polypeptide binding]; other site 1134782002466 active site 1134782002467 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 1134782002468 CHAP domain; Region: CHAP; pfam05257 1134782002469 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1134782002470 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1134782002471 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1134782002472 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1134782002473 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1134782002474 TMP-binding site; other site 1134782002475 ATP-binding site [chemical binding]; other site 1134782002476 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1134782002477 TMP-binding site; other site 1134782002478 ATP-binding site [chemical binding]; other site 1134782002479 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1134782002480 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1134782002481 active site 1134782002482 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1134782002483 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1134782002484 Bacterial protein of unknown function (YtfJ_HI0045); Region: YtfJ_HI0045; pfam09695 1134782002485 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1134782002486 Predicted permeases [General function prediction only]; Region: COG0795 1134782002487 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1134782002488 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1134782002489 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1134782002490 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1134782002491 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782002492 catalytic residue [active] 1134782002493 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782002494 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1134782002495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1134782002496 NAD(P) binding site [chemical binding]; other site 1134782002497 active site 1134782002498 acyl-CoA synthetase; Validated; Region: PRK09192 1134782002499 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 1134782002500 acyl-activating enzyme (AAE) consensus motif; other site 1134782002501 active site 1134782002502 DNA-binding transcriptional regulator GlcC; Provisional; Region: PRK09990 1134782002503 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782002504 DNA-binding site [nucleotide binding]; DNA binding site 1134782002505 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782002506 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1134782002507 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782002508 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1134782002509 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782002510 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1134782002511 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782002512 Cysteine-rich domain; Region: CCG; pfam02754 1134782002513 Cysteine-rich domain; Region: CCG; pfam02754 1134782002514 hypothetical protein; Provisional; Region: PRK09732 1134782002515 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1134782002516 active site 1134782002517 glycolate transporter; Provisional; Region: PRK09695 1134782002518 L-lactate permease; Region: Lactate_perm; cl00701 1134782002519 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 1134782002520 Peptidase M60-like family; Region: M60-like; pfam13402 1134782002521 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1134782002522 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1134782002523 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1134782002524 putative type II secretion protein GspC; Provisional; Region: PRK09681 1134782002525 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1134782002526 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782002527 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1134782002528 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1134782002529 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1134782002530 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1134782002531 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1134782002532 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1134782002533 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1134782002534 Walker A motif; other site 1134782002535 ATP binding site [chemical binding]; other site 1134782002536 Walker B motif; other site 1134782002537 type II secretion system protein F; Region: GspF; TIGR02120 1134782002538 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1134782002539 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1134782002540 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1134782002541 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 1134782002542 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1134782002543 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 1134782002544 Type II transport protein GspH; Region: GspH; pfam12019 1134782002545 type II secretion system protein I; Region: gspI; TIGR01707 1134782002546 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1134782002547 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1134782002548 type II secretion system protein J; Region: gspJ; TIGR01711 1134782002549 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1134782002550 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1134782002551 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1134782002552 GspL-like protein; Provisional; Region: PRK09662 1134782002553 putative general secretion pathway protein YghD; Provisional; Region: PRK09731 1134782002554 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1134782002555 Herpes virus major capsid protein; Region: Herpes_MCP; pfam03122 1134782002556 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 1134782002557 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 1134782002558 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 1134782002559 Protein of unknown function (DUF987); Region: DUF987; pfam06174 1134782002560 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1134782002561 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782002562 MPN+ (JAMM) motif; other site 1134782002563 Zinc-binding site [ion binding]; other site 1134782002564 Antirestriction protein; Region: Antirestrict; pfam03230 1134782002565 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1134782002566 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 1134782002567 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782002568 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1134782002569 hypothetical protein; Provisional; Region: PRK09945 1134782002570 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782002571 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782002572 Autotransporter beta-domain; Region: Autotransporter; smart00869 1134782002573 Predicted GTPase [General function prediction only]; Region: COG3596 1134782002574 YfjP GTPase; Region: YfjP; cd11383 1134782002575 G1 box; other site 1134782002576 GTP/Mg2+ binding site [chemical binding]; other site 1134782002577 Switch I region; other site 1134782002578 G2 box; other site 1134782002579 Switch II region; other site 1134782002580 G3 box; other site 1134782002581 G4 box; other site 1134782002582 G5 box; other site 1134782002583 Replication regulatory protein RepB; Region: RepB-RCR_reg; cl11673 1134782002584 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1134782002585 Haemolysin expression modulating protein; Region: HHA; pfam05321 1134782002586 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1134782002587 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782002588 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782002589 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1134782002590 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1134782002591 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1134782002592 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1134782002593 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 1134782002594 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 1134782002595 Part of AAA domain; Region: AAA_19; pfam13245 1134782002596 Family description; Region: UvrD_C_2; pfam13538 1134782002597 PerC transcriptional activator; Region: PerC; pfam06069 1134782002598 Integrase core domain; Region: rve; pfam00665 1134782002599 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1134782002600 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1134782002601 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1134782002602 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1134782002603 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 1134782002604 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1134782002605 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1134782002606 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1134782002607 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1134782002608 PAAR motif; Region: PAAR_motif; cl15808 1134782002609 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1134782002610 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1134782002611 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1134782002612 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1134782002613 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1134782002614 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1134782002615 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1134782002616 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1134782002617 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782002618 Walker A motif; other site 1134782002619 ATP binding site [chemical binding]; other site 1134782002620 Walker B motif; other site 1134782002621 arginine finger; other site 1134782002622 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782002623 Walker A motif; other site 1134782002624 ATP binding site [chemical binding]; other site 1134782002625 Walker B motif; other site 1134782002626 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1134782002627 Integrase core domain; Region: rve; pfam00665 1134782002628 Integrase core domain; Region: rve_3; cl15866 1134782002629 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1134782002630 ImpA domain protein; Region: DUF3702; pfam12486 1134782002631 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782002632 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782002633 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782002634 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782002635 Integrase core domain; Region: rve; pfam00665 1134782002636 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782002637 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782002638 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782002639 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782002640 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782002641 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1134782002642 Integrase core domain; Region: rve; pfam00665 1134782002643 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 1134782002644 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782002645 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782002646 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1134782002647 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782002648 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1134782002649 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782002650 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782002651 Integrase core domain; Region: rve; pfam00665 1134782002652 Integrase core domain; Region: rve_3; cl15866 1134782002653 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782002654 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1134782002655 putative active site [active] 1134782002656 putative NTP binding site [chemical binding]; other site 1134782002657 putative nucleic acid binding site [nucleotide binding]; other site 1134782002658 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1134782002659 putative transposase OrfB; Reviewed; Region: PHA02517 1134782002660 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1134782002661 Helix-turn-helix domain; Region: HTH_38; pfam13936 1134782002662 Integrase core domain; Region: rve; pfam00665 1134782002663 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782002664 Transposase; Region: HTH_Tnp_1; pfam01527 1134782002665 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 1134782002666 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1134782002667 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1134782002668 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 1134782002669 DNA methylase; Region: N6_N4_Mtase; pfam01555 1134782002670 DNA methylase; Region: N6_N4_Mtase; pfam01555 1134782002671 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 1134782002672 active site 1134782002673 catalytic triad [active] 1134782002674 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1134782002675 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782002676 Walker A motif; other site 1134782002677 ATP binding site [chemical binding]; other site 1134782002678 Walker B motif; other site 1134782002679 arginine finger; other site 1134782002680 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782002681 ATP binding site [chemical binding]; other site 1134782002682 putative Mg++ binding site [ion binding]; other site 1134782002683 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782002684 nucleotide binding region [chemical binding]; other site 1134782002685 ATP-binding site [chemical binding]; other site 1134782002686 SNF-7-like protein; Provisional; Region: PTZ00464 1134782002687 Protein of unknown function (DUF2931); Region: DUF2931; pfam11153 1134782002688 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782002689 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782002690 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782002691 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782002692 integrase; Provisional; Region: PRK09692 1134782002693 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782002694 active site 1134782002695 Int/Topo IB signature motif; other site 1134782002696 Uncharacterized membrane protein, possible Na+ channel or pump [General function prediction only]; Region: COG1811 1134782002697 ornithine decarboxylase; Provisional; Region: PRK13578 1134782002698 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1134782002699 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1134782002700 homodimer interface [polypeptide binding]; other site 1134782002701 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002702 catalytic residue [active] 1134782002703 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1134782002704 nucleoside transporter; Region: 2A0110; TIGR00889 1134782002705 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1134782002706 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1134782002707 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782002708 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782002709 catalytic residue [active] 1134782002710 oxidative damage protection protein; Provisional; Region: PRK05408 1134782002711 adenine DNA glycosylase; Provisional; Region: PRK10880 1134782002712 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1134782002713 minor groove reading motif; other site 1134782002714 helix-hairpin-helix signature motif; other site 1134782002715 substrate binding pocket [chemical binding]; other site 1134782002716 active site 1134782002717 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1134782002718 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1134782002719 DNA binding and oxoG recognition site [nucleotide binding] 1134782002720 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 1134782002721 hypothetical protein; Provisional; Region: PRK11702 1134782002722 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782002723 hypothetical protein; Provisional; Region: PRK10626 1134782002724 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1134782002725 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 1134782002726 homodimer interface [polypeptide binding]; other site 1134782002727 active site 1134782002728 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 1134782002729 HemN family oxidoreductase; Provisional; Region: PRK05660 1134782002730 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782002731 FeS/SAM binding site; other site 1134782002732 HemN C-terminal domain; Region: HemN_C; pfam06969 1134782002733 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1134782002734 active site 1134782002735 dimerization interface [polypeptide binding]; other site 1134782002736 hypothetical protein; Validated; Region: PRK05090 1134782002737 YGGT family; Region: YGGT; pfam02325 1134782002738 YGGT family; Region: YGGT; pfam02325 1134782002739 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1134782002740 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782002741 catalytic residue [active] 1134782002742 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1134782002743 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 1134782002744 Walker A motif; other site 1134782002745 ATP binding site [chemical binding]; other site 1134782002746 Walker B motif; other site 1134782002747 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1134782002748 hypothetical protein; Validated; Region: PRK00228 1134782002749 glutathione synthetase; Provisional; Region: PRK05246 1134782002750 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1134782002751 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1134782002752 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1134782002753 RNA methyltransferase, RsmE family; Region: TIGR00046 1134782002754 DNA-specific endonuclease I; Provisional; Region: PRK15137 1134782002755 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1134782002756 hypothetical protein; Provisional; Region: PRK04860 1134782002757 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1134782002758 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1134782002759 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782002760 putative substrate translocation pore; other site 1134782002761 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782002762 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1134782002763 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1134782002764 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1134782002765 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1134782002766 Protein of unknown function (DUF2684); Region: DUF2684; pfam10885 1134782002767 Virulence promoting factor; Region: YqgB; pfam11036 1134782002768 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 1134782002769 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1134782002770 dimer interface [polypeptide binding]; other site 1134782002771 active site 1134782002772 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782002773 catalytic residues [active] 1134782002774 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1134782002775 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1134782002776 agmatinase; Region: agmatinase; TIGR01230 1134782002777 oligomer interface [polypeptide binding]; other site 1134782002778 putative active site [active] 1134782002779 Mn binding site [ion binding]; other site 1134782002780 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1134782002781 transketolase; Reviewed; Region: PRK12753 1134782002782 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1134782002783 TPP-binding site [chemical binding]; other site 1134782002784 dimer interface [polypeptide binding]; other site 1134782002785 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1134782002786 PYR/PP interface [polypeptide binding]; other site 1134782002787 dimer interface [polypeptide binding]; other site 1134782002788 TPP binding site [chemical binding]; other site 1134782002789 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1134782002790 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782002791 active site 1134782002792 phosphorylation site [posttranslational modification] 1134782002793 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 1134782002794 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 1134782002795 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 1134782002796 active site 1134782002797 P-loop; other site 1134782002798 phosphorylation site [posttranslational modification] 1134782002799 L-sorbose-1-phosphate reductase; Region: sorbose_phosphate_red; cd08238 1134782002800 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782002801 putative NAD(P) binding site [chemical binding]; other site 1134782002802 catalytic Zn binding site [ion binding]; other site 1134782002803 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1134782002804 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1134782002805 putative active site [active] 1134782002806 Transcriptional regulator [Transcription]; Region: MtlR; COG3722 1134782002807 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10022 1134782002808 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1134782002809 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1134782002810 active site 1134782002811 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1134782002812 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1134782002813 Walker A/P-loop; other site 1134782002814 ATP binding site [chemical binding]; other site 1134782002815 Q-loop/lid; other site 1134782002816 ABC transporter signature motif; other site 1134782002817 Walker B; other site 1134782002818 D-loop; other site 1134782002819 H-loop/switch region; other site 1134782002820 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1134782002821 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1134782002822 Walker A/P-loop; other site 1134782002823 ATP binding site [chemical binding]; other site 1134782002824 Q-loop/lid; other site 1134782002825 ABC transporter signature motif; other site 1134782002826 Walker B; other site 1134782002827 D-loop; other site 1134782002828 H-loop/switch region; other site 1134782002829 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 1134782002830 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 1134782002831 trimer interface [polypeptide binding]; other site 1134782002832 putative Zn binding site [ion binding]; other site 1134782002833 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1134782002834 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1134782002835 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1134782002836 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1134782002837 Phosphoglycerate kinase; Region: PGK; pfam00162 1134782002838 substrate binding site [chemical binding]; other site 1134782002839 hinge regions; other site 1134782002840 ADP binding site [chemical binding]; other site 1134782002841 catalytic site [active] 1134782002842 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1134782002843 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1134782002844 active site 1134782002845 intersubunit interface [polypeptide binding]; other site 1134782002846 zinc binding site [ion binding]; other site 1134782002847 Na+ binding site [ion binding]; other site 1134782002848 mechanosensitive channel MscS; Provisional; Region: PRK10334 1134782002849 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782002850 arginine exporter protein; Provisional; Region: PRK09304 1134782002851 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1134782002852 oxidative stress defense protein; Provisional; Region: PRK11087 1134782002853 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782002854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782002855 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782002856 dimerization interface [polypeptide binding]; other site 1134782002857 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1134782002858 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1134782002859 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1134782002860 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 1134782002861 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782002862 substrate binding site [chemical binding]; other site 1134782002863 oxyanion hole (OAH) forming residues; other site 1134782002864 trimer interface [polypeptide binding]; other site 1134782002865 membrane ATPase/protein kinase; Provisional; Region: PRK09435 1134782002866 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 1134782002867 Walker A; other site 1134782002868 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1134782002869 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 1134782002870 B12 binding site [chemical binding]; other site 1134782002871 cobalt ligand [ion binding]; other site 1134782002872 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 1134782002873 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1134782002874 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782002875 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1134782002876 putative dimerization interface [polypeptide binding]; other site 1134782002877 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1134782002878 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1134782002879 active site 1134782002880 dimer interface [polypeptide binding]; other site 1134782002881 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1134782002882 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1134782002883 ligand binding site [chemical binding]; other site 1134782002884 NAD binding site [chemical binding]; other site 1134782002885 tetramer interface [polypeptide binding]; other site 1134782002886 catalytic site [active] 1134782002887 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1134782002888 L-serine binding site [chemical binding]; other site 1134782002889 ACT domain interface; other site 1134782002890 5-formyltetrahydrofolate cyclo-ligase family protein; Provisional; Region: PRK10333 1134782002891 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1134782002892 Z-ring-associated protein; Provisional; Region: PRK10972 1134782002893 hypothetical protein; Reviewed; Region: PRK01736 1134782002894 proline aminopeptidase P II; Provisional; Region: PRK10879 1134782002895 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1134782002896 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1134782002897 active site 1134782002898 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1134782002899 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1134782002900 oxidoreductase; Provisional; Region: PRK08013 1134782002901 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1134782002902 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1134782002903 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1134782002904 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1134782002905 lipoyl attachment site [posttranslational modification]; other site 1134782002906 glycine dehydrogenase; Provisional; Region: PRK05367 1134782002907 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1134782002908 tetramer interface [polypeptide binding]; other site 1134782002909 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002910 catalytic residue [active] 1134782002911 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1134782002912 tetramer interface [polypeptide binding]; other site 1134782002913 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782002914 catalytic residue [active] 1134782002915 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 1134782002916 classical (c) SDRs; Region: SDR_c; cd05233 1134782002917 NAD(P) binding site [chemical binding]; other site 1134782002918 active site 1134782002919 6-phospho-beta-glucosidase BglA; Provisional; Region: PRK15014 1134782002920 beta-galactosidase; Region: BGL; TIGR03356 1134782002921 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1134782002922 hemolysin; Provisional; Region: PRK15087 1134782002923 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1134782002924 putative global regulator; Reviewed; Region: PRK09559 1134782002925 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1134782002926 hypothetical protein; Provisional; Region: PRK10878 1134782002927 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 1134782002928 flavodoxin FldB; Provisional; Region: PRK12359 1134782002929 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1134782002930 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1134782002931 active site 1134782002932 Int/Topo IB signature motif; other site 1134782002933 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1134782002934 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1134782002935 dimerization domain [polypeptide binding]; other site 1134782002936 dimer interface [polypeptide binding]; other site 1134782002937 catalytic residues [active] 1134782002938 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1134782002939 DHH family; Region: DHH; pfam01368 1134782002940 DHHA1 domain; Region: DHHA1; pfam02272 1134782002941 peptide chain release factor 2; Provisional; Region: PRK08787 1134782002942 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1134782002943 RF-1 domain; Region: RF-1; pfam00472 1134782002944 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1134782002945 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1134782002946 dimer interface [polypeptide binding]; other site 1134782002947 putative anticodon binding site; other site 1134782002948 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1134782002949 motif 1; other site 1134782002950 active site 1134782002951 motif 2; other site 1134782002952 motif 3; other site 1134782002953 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 1134782002954 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 1134782002955 active site 1134782002956 metal binding site [ion binding]; metal-binding site 1134782002957 nudix motif; other site 1134782002958 xanthine permease; Region: pbuX; TIGR03173 1134782002959 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12809 1134782002960 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782002961 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1134782002962 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782002963 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1134782002964 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1134782002965 guanine deaminase; Provisional; Region: PRK09228 1134782002966 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1134782002967 active site 1134782002968 uracil-xanthine permease; Region: ncs2; TIGR00801 1134782002969 putative hypoxanthine oxidase; Provisional; Region: PRK09800 1134782002970 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1134782002971 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1134782002972 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1134782002973 probable selenate reductase, FAD-binding subunit; Region: Se_sel_red_FAD; TIGR03312 1134782002974 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1134782002975 putative selenium metabolism protein SsnA; Region: Se_ssnA; TIGR03314 1134782002976 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1134782002977 active site 1134782002978 putative substrate binding pocket [chemical binding]; other site 1134782002979 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1134782002980 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1134782002981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782002982 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782002983 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1134782002984 Ligand binding site; other site 1134782002985 metal-binding site 1134782002986 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 1134782002987 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1134782002988 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1134782002989 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1134782002990 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 1134782002991 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1134782002992 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1134782002993 carbamate kinase; Reviewed; Region: PRK12686 1134782002994 putative substrate binding site [chemical binding]; other site 1134782002995 homodimer interface [polypeptide binding]; other site 1134782002996 nucleotide binding site [chemical binding]; other site 1134782002997 nucleotide binding site [chemical binding]; other site 1134782002998 D-hydantoinase; Region: D-hydantoinase; TIGR02033 1134782002999 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1134782003000 tetramer interface [polypeptide binding]; other site 1134782003001 active site 1134782003002 peptidase; Reviewed; Region: PRK13004 1134782003003 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1134782003004 putative metal binding site [ion binding]; other site 1134782003005 putative dimer interface [polypeptide binding]; other site 1134782003006 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1134782003007 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1134782003008 catalytic residue [active] 1134782003009 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1134782003010 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1134782003011 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1134782003012 GAF domain; Region: GAF; cl17456 1134782003013 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1134782003014 PAS domain; Region: PAS; smart00091 1134782003015 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003016 Walker A motif; other site 1134782003017 ATP binding site [chemical binding]; other site 1134782003018 Walker B motif; other site 1134782003019 arginine finger; other site 1134782003020 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782003021 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 1134782003022 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782003023 catalytic loop [active] 1134782003024 iron binding site [ion binding]; other site 1134782003025 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1134782003026 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 1134782003027 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1134782003028 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 1134782003029 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1134782003030 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1134782003031 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782003032 Peptidase family M23; Region: Peptidase_M23; pfam01551 1134782003033 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 1134782003034 potential frameshift: common BLAST hit: gi|170018890|ref|YP_001723844.1| surface presentation of antigens protein SpaO 1134782003035 type III secretion system protein SpaP; Provisional; Region: spaP; PRK12796 1134782003036 type III secretion system protein SpaQ; Provisional; Region: PRK15333 1134782003037 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 1134782003038 potential frameshift: common BLAST hit: gi|218706359|ref|YP_002413878.1| surface presentation of antigens protein SpaS 1134782003039 type III secretion system protein SpaS; Validated; Region: PRK08156 1134782003040 InvH outer membrane lipoprotein; Region: InvH; pfam04741 1134782003041 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782003042 DNA binding residues [nucleotide binding] 1134782003043 dimerization interface [polypeptide binding]; other site 1134782003044 type III secretion system needle complex protein PrgH; Provisional; Region: PRK15327; cl12363 1134782003045 Type III secretion system protein PrgH-EprH (PrgH); Region: PrgH; pfam09480 1134782003046 Type III secretion needle MxiH like; Region: MxiH; cl09641 1134782003047 type III secretion system needle complex protein PrgJ; Provisional; Region: PRK15325 1134782003048 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 1134782003049 type III secretion apparatus protein OrgA/MxiK; Region: OrgA_MxiK; TIGR02555 1134782003050 invasion protein OrgB; Provisional; Region: PRK15322 1134782003051 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782003052 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782003053 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782003054 DNA binding residues [nucleotide binding] 1134782003055 dimerization interface [polypeptide binding]; other site 1134782003056 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1134782003057 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782003058 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782003059 catalytic residue [active] 1134782003060 transcriptional regulator; Provisional; Region: PRK11906 1134782003061 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1134782003062 DNA binding site [nucleotide binding] 1134782003063 Tetratricopeptide repeat; Region: TPR_2; pfam07719 1134782003064 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1134782003065 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1134782003066 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1134782003067 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 1134782003068 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1134782003069 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1134782003070 DNA binding residues [nucleotide binding] 1134782003071 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1134782003072 serine transporter; Region: stp; TIGR00814 1134782003073 putative acyltransferase; Provisional; Region: PRK05790 1134782003074 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1134782003075 dimer interface [polypeptide binding]; other site 1134782003076 active site 1134782003077 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1134782003078 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1134782003079 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1134782003080 NADP binding site [chemical binding]; other site 1134782003081 homodimer interface [polypeptide binding]; other site 1134782003082 active site 1134782003083 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1134782003084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003085 putative substrate translocation pore; other site 1134782003086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003087 putative racemase; Provisional; Region: PRK10200 1134782003088 aspartate racemase; Region: asp_race; TIGR00035 1134782003089 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1134782003090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782003091 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 1134782003092 putative dimerization interface [polypeptide binding]; other site 1134782003093 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1134782003094 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1134782003095 active site 1134782003096 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782003097 substrate binding site [chemical binding]; other site 1134782003098 catalytic residues [active] 1134782003099 dimer interface [polypeptide binding]; other site 1134782003100 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 1134782003101 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782003102 DNA binding site [nucleotide binding] 1134782003103 domain linker motif; other site 1134782003104 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1134782003105 dimerization interface (closed form) [polypeptide binding]; other site 1134782003106 ligand binding site [chemical binding]; other site 1134782003107 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 1134782003108 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1134782003109 putative acyl-acceptor binding pocket; other site 1134782003110 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1134782003111 acyl-activating enzyme (AAE) consensus motif; other site 1134782003112 putative AMP binding site [chemical binding]; other site 1134782003113 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1134782003114 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003115 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782003116 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782003117 active site 1134782003118 catalytic tetrad [active] 1134782003119 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1134782003120 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1134782003121 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1134782003122 putative DNA-binding cleft [nucleotide binding]; other site 1134782003123 putative DNA clevage site; other site 1134782003124 molecular lever; other site 1134782003125 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1134782003126 putative active site [active] 1134782003127 Ap4A binding site [chemical binding]; other site 1134782003128 nudix motif; other site 1134782003129 putative metal binding site [ion binding]; other site 1134782003130 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1134782003131 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782003132 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1134782003133 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782003134 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1134782003135 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 1134782003136 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1134782003137 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1134782003138 dimerization interface [polypeptide binding]; other site 1134782003139 active site 1134782003140 hypothetical protein; Provisional; Region: PRK10506 1134782003141 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1134782003142 hypothetical protein; Provisional; Region: PRK10557 1134782003143 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1134782003144 hypothetical protein; Provisional; Region: PRK11521 1134782003145 hypothetical protein; Provisional; Region: PRK10332 1134782003146 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 1134782003147 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1134782003148 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 1134782003149 protease3; Provisional; Region: PRK15101 1134782003150 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1134782003151 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1134782003152 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1134782003153 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1134782003154 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1134782003155 AAA domain; Region: AAA_30; pfam13604 1134782003156 Family description; Region: UvrD_C_2; pfam13538 1134782003157 N-acetylglutamate synthase; Validated; Region: PRK05279 1134782003158 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1134782003159 putative feedback inhibition sensing region; other site 1134782003160 putative nucleotide binding site [chemical binding]; other site 1134782003161 putative substrate binding site [chemical binding]; other site 1134782003162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782003163 Coenzyme A binding pocket [chemical binding]; other site 1134782003164 AMIN domain; Region: AMIN; pfam11741 1134782003165 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1134782003166 active site 1134782003167 metal binding site [ion binding]; metal-binding site 1134782003168 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1134782003169 MltA specific insert domain; Region: MltA; pfam03562 1134782003170 3D domain; Region: 3D; pfam06725 1134782003171 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1134782003172 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1134782003173 putative ATP binding site [chemical binding]; other site 1134782003174 putative substrate interface [chemical binding]; other site 1134782003175 CsdA-binding activator; Provisional; Region: PRK15019 1134782003176 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1134782003177 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1134782003178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782003179 catalytic residue [active] 1134782003180 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 1134782003181 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1134782003182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782003183 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1134782003184 dimerization interface [polypeptide binding]; other site 1134782003185 substrate binding pocket [chemical binding]; other site 1134782003186 hypothetical protein; Provisional; Region: PRK10873 1134782003187 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1134782003188 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1134782003189 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 1134782003190 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782003191 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782003192 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 1134782003193 L-fuculokinase; Provisional; Region: PRK10331 1134782003194 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1134782003195 nucleotide binding site [chemical binding]; other site 1134782003196 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1134782003197 L-fucose isomerase (FucIase); FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose during glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in blood group...; Region: L-fucose_isomerase; cd03556 1134782003198 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1134782003199 trimer interface [polypeptide binding]; other site 1134782003200 substrate binding site [chemical binding]; other site 1134782003201 Mn binding site [ion binding]; other site 1134782003202 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1134782003203 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003204 putative substrate translocation pore; other site 1134782003205 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1134782003206 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1134782003207 intersubunit interface [polypeptide binding]; other site 1134782003208 active site 1134782003209 Zn2+ binding site [ion binding]; other site 1134782003210 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1134782003211 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1134782003212 dimer interface [polypeptide binding]; other site 1134782003213 active site 1134782003214 metal binding site [ion binding]; metal-binding site 1134782003215 flap endonuclease-like protein; Provisional; Region: PRK09482 1134782003216 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1134782003217 active site 1134782003218 metal binding site 1 [ion binding]; metal-binding site 1134782003219 putative 5' ssDNA interaction site; other site 1134782003220 metal binding site 3; metal-binding site 1134782003221 metal binding site 2 [ion binding]; metal-binding site 1134782003222 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1134782003223 putative DNA binding site [nucleotide binding]; other site 1134782003224 putative metal binding site [ion binding]; other site 1134782003225 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1134782003226 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1134782003227 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1134782003228 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1134782003229 serine transporter; Region: stp; TIGR00814 1134782003230 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1134782003231 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1134782003232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1134782003233 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1134782003234 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1134782003235 SecY interacting protein Syd; Provisional; Region: PRK04968 1134782003236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3098 1134782003237 potential frameshift: common BLAST hit: gi|260869469|ref|YP_003235871.1| tRNA pseudouridine synthase 1134782003238 flavodoxin; Provisional; Region: PRK08105 1134782003239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003240 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782003241 putative substrate translocation pore; other site 1134782003242 potential frameshift: common BLAST hit: gi|260845434|ref|YP_003223212.1| (D)-glucarate dehydratase 2 GudX 1134782003243 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 1134782003244 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 1134782003245 active site 1134782003246 tetramer interface [polypeptide binding]; other site 1134782003247 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1134782003248 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 1134782003249 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782003250 dimerization interface [polypeptide binding]; other site 1134782003251 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782003252 dimer interface [polypeptide binding]; other site 1134782003253 phosphorylation site [posttranslational modification] 1134782003254 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782003255 ATP binding site [chemical binding]; other site 1134782003256 Mg2+ binding site [ion binding]; other site 1134782003257 G-X-G motif; other site 1134782003258 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 1134782003259 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782003260 active site 1134782003261 phosphorylation site [posttranslational modification] 1134782003262 intermolecular recognition site; other site 1134782003263 dimerization interface [polypeptide binding]; other site 1134782003264 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782003265 putative binding surface; other site 1134782003266 active site 1134782003267 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1134782003268 TRAM domain; Region: TRAM; pfam01938 1134782003269 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782003270 S-adenosylmethionine binding site [chemical binding]; other site 1134782003271 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1134782003272 HD domain; Region: HD_4; pfam13328 1134782003273 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1134782003274 synthetase active site [active] 1134782003275 NTP binding site [chemical binding]; other site 1134782003276 metal binding site [ion binding]; metal-binding site 1134782003277 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1134782003278 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1134782003279 antitoxin MazE; Provisional; Region: PRK09798 1134782003280 toxin MazF; Provisional; Region: PRK09907 1134782003281 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1134782003282 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1134782003283 homodimer interface [polypeptide binding]; other site 1134782003284 metal binding site [ion binding]; metal-binding site 1134782003285 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1134782003286 homodimer interface [polypeptide binding]; other site 1134782003287 active site 1134782003288 putative chemical substrate binding site [chemical binding]; other site 1134782003289 metal binding site [ion binding]; metal-binding site 1134782003290 CTP synthetase; Validated; Region: pyrG; PRK05380 1134782003291 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1134782003292 Catalytic site [active] 1134782003293 active site 1134782003294 UTP binding site [chemical binding]; other site 1134782003295 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1134782003296 active site 1134782003297 putative oxyanion hole; other site 1134782003298 catalytic triad [active] 1134782003299 enolase; Provisional; Region: eno; PRK00077 1134782003300 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1134782003301 dimer interface [polypeptide binding]; other site 1134782003302 metal binding site [ion binding]; metal-binding site 1134782003303 substrate binding pocket [chemical binding]; other site 1134782003304 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1134782003305 Repair protein; Region: Repair_PSII; pfam04536 1134782003306 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1134782003307 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1134782003308 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1134782003309 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1134782003310 nucleotide binding site [chemical binding]; other site 1134782003311 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782003312 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003313 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1134782003314 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1134782003315 NADP binding site [chemical binding]; other site 1134782003316 homodimer interface [polypeptide binding]; other site 1134782003317 active site 1134782003318 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1134782003319 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782003320 benzoate transport; Region: 2A0115; TIGR00895 1134782003321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003322 putative substrate translocation pore; other site 1134782003323 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1134782003324 Ligand binding site [chemical binding]; other site 1134782003325 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1134782003326 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 1134782003327 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1134782003328 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1134782003329 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1134782003330 Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]; Region: GlpP; COG1954 1134782003331 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1134782003332 putative oxidoreductase FixC; Provisional; Region: PRK10157 1134782003333 6-pyruvoyl tetrahydropterin synthase (PTPS). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids, as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after uptake by a...; Region: PTPS; cd00470 1134782003334 homohexamer interface [polypeptide binding]; other site 1134782003335 putative substrate stabilizing pore; other site 1134782003336 pterin binding site; other site 1134782003337 sulfite reductase subunit alpha; Provisional; Region: cysJ; PRK10953 1134782003338 Flavodoxin; Region: Flavodoxin_1; pfam00258 1134782003339 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 1134782003340 FAD binding pocket [chemical binding]; other site 1134782003341 FAD binding motif [chemical binding]; other site 1134782003342 catalytic residues [active] 1134782003343 NAD binding pocket [chemical binding]; other site 1134782003344 phosphate binding motif [ion binding]; other site 1134782003345 beta-alpha-beta structure motif; other site 1134782003346 sulfite reductase subunit beta; Provisional; Region: PRK13504 1134782003347 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1134782003348 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1134782003349 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1134782003350 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1134782003351 Active Sites [active] 1134782003352 Hok/gef family; Region: HOK_GEF; pfam01848 1134782003353 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782003354 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1134782003355 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1134782003356 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 1134782003357 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1134782003358 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09669 1134782003359 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09670 1134782003360 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cd09646 1134782003361 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1134782003362 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 1134782003363 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09664 1134782003364 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 1134782003365 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09648 1134782003366 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1134782003367 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1134782003368 metal binding site [ion binding]; metal-binding site 1134782003369 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1134782003370 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1134782003371 Active Sites [active] 1134782003372 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 1134782003373 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1134782003374 CysD dimerization site [polypeptide binding]; other site 1134782003375 G1 box; other site 1134782003376 putative GEF interaction site [polypeptide binding]; other site 1134782003377 GTP/Mg2+ binding site [chemical binding]; other site 1134782003378 Switch I region; other site 1134782003379 G2 box; other site 1134782003380 G3 box; other site 1134782003381 Switch II region; other site 1134782003382 G4 box; other site 1134782003383 G5 box; other site 1134782003384 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1134782003385 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1134782003386 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 1134782003387 ligand-binding site [chemical binding]; other site 1134782003388 Protein of unknown function (DUF3561); Region: DUF3561; pfam12084 1134782003389 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1134782003390 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1134782003391 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1134782003392 substrate binding site; other site 1134782003393 dimer interface; other site 1134782003394 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1134782003395 homotrimer interaction site [polypeptide binding]; other site 1134782003396 zinc binding site [ion binding]; other site 1134782003397 CDP-binding sites; other site 1134782003398 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1134782003399 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1134782003400 Permutation of conserved domain; other site 1134782003401 active site 1134782003402 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1134782003403 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1134782003404 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782003405 S-adenosylmethionine binding site [chemical binding]; other site 1134782003406 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1134782003407 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782003408 Peptidase family M23; Region: Peptidase_M23; pfam01551 1134782003409 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1134782003410 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1134782003411 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782003412 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1134782003413 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782003414 DNA binding residues [nucleotide binding] 1134782003415 MarR family; Region: MarR_2; cl17246 1134782003416 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1134782003417 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 1134782003418 Flavoprotein; Region: Flavoprotein; pfam02441 1134782003419 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1134782003420 Protein of unknown function (DUF1062); Region: DUF1062; cl01786 1134782003421 putative transporter; Provisional; Region: PRK09821 1134782003422 GntP family permease; Region: GntP_permease; pfam02447 1134782003423 hypothetical protein; Provisional; Region: PRK09989 1134782003424 putative aldolase; Validated; Region: PRK08130 1134782003425 active site 1134782003426 intersubunit interface [polypeptide binding]; other site 1134782003427 Zn2+ binding site [ion binding]; other site 1134782003428 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1134782003429 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1134782003430 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1134782003431 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782003432 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1134782003433 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782003434 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1134782003435 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1134782003436 active site 1134782003437 metal binding site [ion binding]; metal-binding site 1134782003438 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1134782003439 MutS domain I; Region: MutS_I; pfam01624 1134782003440 MutS domain II; Region: MutS_II; pfam05188 1134782003441 MutS domain III; Region: MutS_III; pfam05192 1134782003442 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1134782003443 Walker A/P-loop; other site 1134782003444 ATP binding site [chemical binding]; other site 1134782003445 Q-loop/lid; other site 1134782003446 ABC transporter signature motif; other site 1134782003447 Walker B; other site 1134782003448 D-loop; other site 1134782003449 H-loop/switch region; other site 1134782003450 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 1134782003451 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 1134782003452 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782003453 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782003454 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003455 Walker A motif; other site 1134782003456 ATP binding site [chemical binding]; other site 1134782003457 Walker B motif; other site 1134782003458 arginine finger; other site 1134782003459 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1134782003460 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1134782003461 dimerization interface [polypeptide binding]; other site 1134782003462 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1134782003463 ATP binding site [chemical binding]; other site 1134782003464 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1134782003465 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1134782003466 hydrogenase assembly chaperone; Provisional; Region: PRK10409 1134782003467 hydrogenase nickel incorporation protein HypB; Provisional; Region: PRK10463 1134782003468 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1134782003469 hydrogenase nickel incorporation protein; Validated; Region: hypA; PRK03681 1134782003470 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 1134782003471 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1134782003472 formate hydrogenlyase subunit 3; Reviewed; Region: PRK08042 1134782003473 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782003474 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1134782003475 NADH dehydrogenase; Region: NADHdh; cl00469 1134782003476 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1134782003477 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1134782003478 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1134782003479 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 1134782003480 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782003481 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1134782003482 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1134782003483 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 1134782003484 nickel binding site [ion binding]; other site 1134782003485 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782003486 non-specific DNA binding site [nucleotide binding]; other site 1134782003487 salt bridge; other site 1134782003488 sequence-specific DNA binding site [nucleotide binding]; other site 1134782003489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782003490 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782003491 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782003492 cryptic 6-phospho-beta-glucosidase; Provisional; Region: PRK09852 1134782003493 beta-galactosidase; Region: BGL; TIGR03356 1134782003494 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC; Provisional; Region: PRK09796 1134782003495 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782003496 active site turn [active] 1134782003497 phosphorylation site [posttranslational modification] 1134782003498 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1134782003499 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1134782003500 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782003501 DNA binding site [nucleotide binding] 1134782003502 domain linker motif; other site 1134782003503 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1134782003504 dimerization interface (closed form) [polypeptide binding]; other site 1134782003505 ligand binding site [chemical binding]; other site 1134782003506 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 1134782003507 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1134782003508 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1134782003509 Acylphosphatase; Region: Acylphosphatase; pfam00708 1134782003510 HypF finger; Region: zf-HYPF; pfam07503 1134782003511 HypF finger; Region: zf-HYPF; pfam07503 1134782003512 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1134782003513 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 1134782003514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782003515 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 1134782003516 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1134782003517 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1134782003518 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1134782003519 iron binding site [ion binding]; other site 1134782003520 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1134782003521 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782003522 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003523 Walker A motif; other site 1134782003524 ATP binding site [chemical binding]; other site 1134782003525 Walker B motif; other site 1134782003526 arginine finger; other site 1134782003527 D-arabinose 5-phosphate isomerase; Provisional; Region: gutQ; PRK11543 1134782003528 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1134782003529 putative active site [active] 1134782003530 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1134782003531 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 1134782003532 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782003533 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782003534 DNA-binding transcriptional activator GutM; Provisional; Region: PRK10234 1134782003535 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 1134782003536 Sorbitol 6-phosphate dehydrogenase (SDH), classical (c) SDRs; Region: SDH_SDR_c_like; cd05322 1134782003537 putative NAD(P) binding site [chemical binding]; other site 1134782003538 active site 1134782003539 PTS system glucitol/sorbitol-specific transporter subunit IIA; Provisional; Region: PRK10377 1134782003540 PTS system, glucitol/sorbitol-specific, IIBC component; Region: EIIBC-GUT; TIGR00825 1134782003541 Sorbitol phosphotransferase enzyme II N-terminus; Region: EIIBC-GUT_N; pfam03612 1134782003542 Sorbitol phosphotransferase enzyme II C-terminus; Region: EIIBC-GUT_C; pfam07663 1134782003543 PTS system, glucitol/sorbitol-specific, IIC component; Region: EII-GUT; TIGR00821 1134782003544 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1134782003545 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782003546 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782003547 hypothetical protein; Validated; Region: PRK03661 1134782003548 recombinase A; Provisional; Region: recA; PRK09354 1134782003549 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1134782003550 hexamer interface [polypeptide binding]; other site 1134782003551 Walker A motif; other site 1134782003552 ATP binding site [chemical binding]; other site 1134782003553 Walker B motif; other site 1134782003554 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1134782003555 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1134782003556 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1134782003557 motif 1; other site 1134782003558 active site 1134782003559 motif 2; other site 1134782003560 motif 3; other site 1134782003561 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1134782003562 DHHA1 domain; Region: DHHA1; pfam02272 1134782003563 carbon storage regulator; Provisional; Region: PRK01712 1134782003564 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1134782003565 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782003566 motif II; other site 1134782003567 Predicted membrane protein [Function unknown]; Region: COG1238 1134782003568 glutamate--cysteine ligase; Provisional; Region: PRK02107 1134782003569 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1134782003570 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1134782003571 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003572 putative substrate translocation pore; other site 1134782003573 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003574 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1134782003575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782003576 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782003577 transcriptional repressor MprA; Provisional; Region: PRK10870 1134782003578 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1134782003579 putative L-valine exporter; Provisional; Region: PRK10408 1134782003580 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1134782003581 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1134782003582 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003583 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 1134782003584 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1134782003585 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 1134782003586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782003587 dimer interface [polypeptide binding]; other site 1134782003588 conserved gate region; other site 1134782003589 putative PBP binding loops; other site 1134782003590 ABC-ATPase subunit interface; other site 1134782003591 glycine betaine transporter ATP-binding subunit; Provisional; Region: PRK10070 1134782003592 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1134782003593 Walker A/P-loop; other site 1134782003594 ATP binding site [chemical binding]; other site 1134782003595 Q-loop/lid; other site 1134782003596 ABC transporter signature motif; other site 1134782003597 Walker B; other site 1134782003598 D-loop; other site 1134782003599 H-loop/switch region; other site 1134782003600 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 1134782003601 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1134782003602 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1134782003603 dimer interface [polypeptide binding]; other site 1134782003604 putative radical transfer pathway; other site 1134782003605 diiron center [ion binding]; other site 1134782003606 tyrosyl radical; other site 1134782003607 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1134782003608 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1134782003609 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1134782003610 active site 1134782003611 dimer interface [polypeptide binding]; other site 1134782003612 catalytic residues [active] 1134782003613 effector binding site; other site 1134782003614 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1134782003615 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1134782003616 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1134782003617 catalytic residues [active] 1134782003618 hypothetical protein; Provisional; Region: PRK10132 1134782003619 hypothetical protein; Provisional; Region: PRK10556 1134782003620 Protein of unknown function (DUF1144); Region: DUF1144; pfam06610 1134782003621 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1134782003622 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1134782003623 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YgaP, and similar uncharacterized putative rhodanese-related sulfurtransferases; Region: RHOD_YgaP; cd01527 1134782003624 active site residue [active] 1134782003625 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1134782003626 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782003627 dimerization interface [polypeptide binding]; other site 1134782003628 putative DNA binding site [nucleotide binding]; other site 1134782003629 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1134782003630 putative Zn2+ binding site [ion binding]; other site 1134782003631 Uncharacterized homolog of Blt101 [Function unknown]; Region: COG0401 1134782003632 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 1134782003633 bacterial OsmY and nodulation domain; Region: BON; smart00749 1134782003634 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782003635 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 1134782003636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782003637 DNA-binding site [nucleotide binding]; DNA binding site 1134782003638 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782003639 gamma-aminobutyrate transporter; Provisional; Region: PRK10197 1134782003640 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 1134782003641 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782003642 inhibitor-cofactor binding pocket; inhibition site 1134782003643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782003644 catalytic residue [active] 1134782003645 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1134782003646 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1134782003647 tetramerization interface [polypeptide binding]; other site 1134782003648 NAD(P) binding site [chemical binding]; other site 1134782003649 catalytic residues [active] 1134782003650 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1134782003651 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1134782003652 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 1134782003653 substrate binding pocket [chemical binding]; other site 1134782003654 active site 1134782003655 iron coordination sites [ion binding]; other site 1134782003656 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1134782003657 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1134782003658 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 1134782003659 active site 1134782003660 catalytic site [active] 1134782003661 HTH-like domain; Region: HTH_21; pfam13276 1134782003662 Integrase core domain; Region: rve; pfam00665 1134782003663 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1134782003664 Integrase core domain; Region: rve_3; pfam13683 1134782003665 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782003666 Transposase; Region: HTH_Tnp_1; cl17663 1134782003667 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1134782003668 integrase; Provisional; Region: PRK09692 1134782003669 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782003670 active site 1134782003671 Int/Topo IB signature motif; other site 1134782003672 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1134782003673 SmpB-tmRNA interface; other site 1134782003674 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1134782003675 putative coenzyme Q binding site [chemical binding]; other site 1134782003676 hypothetical protein; Validated; Region: PRK01777 1134782003677 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1134782003678 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1134782003679 recombination and repair protein; Provisional; Region: PRK10869 1134782003680 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1134782003681 Walker A/P-loop; other site 1134782003682 ATP binding site [chemical binding]; other site 1134782003683 Q-loop/lid; other site 1134782003684 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1134782003685 Q-loop/lid; other site 1134782003686 ABC transporter signature motif; other site 1134782003687 Walker B; other site 1134782003688 D-loop; other site 1134782003689 H-loop/switch region; other site 1134782003690 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 1134782003691 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1134782003692 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1134782003693 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1134782003694 dimer interface [polypeptide binding]; other site 1134782003695 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1134782003696 hypothetical protein; Provisional; Region: PRK11573 1134782003697 Domain of unknown function DUF21; Region: DUF21; pfam01595 1134782003698 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1134782003699 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782003700 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1134782003701 signal recognition particle protein; Provisional; Region: PRK10867 1134782003702 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1134782003703 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1134782003704 P loop; other site 1134782003705 GTP binding site [chemical binding]; other site 1134782003706 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1134782003707 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1134782003708 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1134782003709 RimM N-terminal domain; Region: RimM; pfam01782 1134782003710 PRC-barrel domain; Region: PRC; pfam05239 1134782003711 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1134782003712 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1134782003713 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1134782003714 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782003715 ligand binding site [chemical binding]; other site 1134782003716 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1134782003717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782003718 metal binding site [ion binding]; metal-binding site 1134782003719 active site 1134782003720 I-site; other site 1134782003721 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1134782003722 lipoprotein; Provisional; Region: PRK11443 1134782003723 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 1134782003724 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1134782003725 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1134782003726 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1134782003727 Chorismate mutase type II; Region: CM_2; cl00693 1134782003728 prephenate dehydrogenase; Validated; Region: PRK08507 1134782003729 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1134782003730 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1134782003731 Prephenate dehydratase; Region: PDT; pfam00800 1134782003732 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1134782003733 putative L-Phe binding site [chemical binding]; other site 1134782003734 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1134782003735 30S subunit binding site; other site 1134782003736 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 1134782003737 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 1134782003738 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1134782003739 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782003740 RNA binding surface [nucleotide binding]; other site 1134782003741 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1134782003742 active site 1134782003743 hypothetical protein; Provisional; Region: PRK10723 1134782003744 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1134782003745 protein disaggregation chaperone; Provisional; Region: PRK10865 1134782003746 Clp amino terminal domain; Region: Clp_N; pfam02861 1134782003747 Clp amino terminal domain; Region: Clp_N; pfam02861 1134782003748 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003749 Walker A motif; other site 1134782003750 ATP binding site [chemical binding]; other site 1134782003751 Walker B motif; other site 1134782003752 arginine finger; other site 1134782003753 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003754 Walker A motif; other site 1134782003755 ATP binding site [chemical binding]; other site 1134782003756 Walker B motif; other site 1134782003757 arginine finger; other site 1134782003758 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1134782003759 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1134782003760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003761 putative substrate translocation pore; other site 1134782003762 lipoprotein; Provisional; Region: PRK10759 1134782003763 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1134782003764 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1134782003765 domain interface [polypeptide binding]; other site 1134782003766 putative active site [active] 1134782003767 catalytic site [active] 1134782003768 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1134782003769 domain interface [polypeptide binding]; other site 1134782003770 putative active site [active] 1134782003771 catalytic site [active] 1134782003772 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1134782003773 CoA binding domain; Region: CoA_binding_2; pfam13380 1134782003774 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1134782003775 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1134782003776 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1134782003777 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1134782003778 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1134782003779 thioredoxin 2; Provisional; Region: PRK10996 1134782003780 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1134782003781 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1134782003782 catalytic residues [active] 1134782003783 putative methyltransferase; Provisional; Region: PRK10864 1134782003784 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1134782003785 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1134782003786 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1134782003787 ligand binding site [chemical binding]; other site 1134782003788 active site 1134782003789 UGI interface [polypeptide binding]; other site 1134782003790 catalytic site [active] 1134782003791 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1134782003792 cysteine/O-acetylserine exporter; Provisional; Region: PRK10323 1134782003793 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782003794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782003795 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1134782003796 dimerization interface [polypeptide binding]; other site 1134782003797 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782003798 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1134782003799 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1134782003800 ATP binding site [chemical binding]; other site 1134782003801 Mg++ binding site [ion binding]; other site 1134782003802 motif III; other site 1134782003803 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782003804 nucleotide binding region [chemical binding]; other site 1134782003805 ATP-binding site [chemical binding]; other site 1134782003806 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1134782003807 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1134782003808 L-aspartate oxidase; Provisional; Region: PRK09077 1134782003809 L-aspartate oxidase; Provisional; Region: PRK06175 1134782003810 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1134782003811 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1134782003812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782003813 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782003814 DNA binding residues [nucleotide binding] 1134782003815 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1134782003816 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1134782003817 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1134782003818 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1134782003819 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1134782003820 SoxR reducing system protein RseC; Provisional; Region: PRK10862 1134782003821 GTP-binding protein LepA; Provisional; Region: PRK05433 1134782003822 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1134782003823 G1 box; other site 1134782003824 putative GEF interaction site [polypeptide binding]; other site 1134782003825 GTP/Mg2+ binding site [chemical binding]; other site 1134782003826 Switch I region; other site 1134782003827 G2 box; other site 1134782003828 G3 box; other site 1134782003829 Switch II region; other site 1134782003830 G4 box; other site 1134782003831 G5 box; other site 1134782003832 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1134782003833 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1134782003834 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1134782003835 signal peptidase I; Provisional; Region: PRK10861 1134782003836 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1134782003837 Catalytic site [active] 1134782003838 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1134782003839 ribonuclease III; Reviewed; Region: rnc; PRK00102 1134782003840 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1134782003841 dimerization interface [polypeptide binding]; other site 1134782003842 active site 1134782003843 metal binding site [ion binding]; metal-binding site 1134782003844 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1134782003845 dsRNA binding site [nucleotide binding]; other site 1134782003846 GTPase Era; Reviewed; Region: era; PRK00089 1134782003847 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1134782003848 G1 box; other site 1134782003849 GTP/Mg2+ binding site [chemical binding]; other site 1134782003850 Switch I region; other site 1134782003851 G2 box; other site 1134782003852 Switch II region; other site 1134782003853 G3 box; other site 1134782003854 G4 box; other site 1134782003855 G5 box; other site 1134782003856 KH domain; Region: KH_2; pfam07650 1134782003857 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1134782003858 Recombination protein O N terminal; Region: RecO_N; pfam11967 1134782003859 Recombination protein O C terminal; Region: RecO_C; pfam02565 1134782003860 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1134782003861 active site 1134782003862 hydrophilic channel; other site 1134782003863 dimerization interface [polypeptide binding]; other site 1134782003864 catalytic residues [active] 1134782003865 active site lid [active] 1134782003866 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 1134782003867 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1134782003868 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1134782003869 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 1134782003870 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1134782003871 putative active site [active] 1134782003872 hypothetical protein; Provisional; Region: PRK11590 1134782003873 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1134782003874 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1134782003875 nucleoside/Zn binding site; other site 1134782003876 dimer interface [polypeptide binding]; other site 1134782003877 catalytic motif [active] 1134782003878 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1134782003879 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782003880 substrate binding pocket [chemical binding]; other site 1134782003881 membrane-bound complex binding site; other site 1134782003882 hinge residues; other site 1134782003883 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782003884 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782003885 catalytic residue [active] 1134782003886 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1134782003887 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1134782003888 dimerization interface [polypeptide binding]; other site 1134782003889 ATP binding site [chemical binding]; other site 1134782003890 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1134782003891 dimerization interface [polypeptide binding]; other site 1134782003892 ATP binding site [chemical binding]; other site 1134782003893 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1134782003894 putative active site [active] 1134782003895 catalytic triad [active] 1134782003896 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1134782003897 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782003898 dimer interface [polypeptide binding]; other site 1134782003899 phosphorylation site [posttranslational modification] 1134782003900 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782003901 ATP binding site [chemical binding]; other site 1134782003902 Mg2+ binding site [ion binding]; other site 1134782003903 G-X-G motif; other site 1134782003904 hypothetical protein; Provisional; Region: PRK10722 1134782003905 response regulator GlrR; Provisional; Region: PRK15115 1134782003906 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782003907 active site 1134782003908 phosphorylation site [posttranslational modification] 1134782003909 intermolecular recognition site; other site 1134782003910 dimerization interface [polypeptide binding]; other site 1134782003911 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782003912 Walker A motif; other site 1134782003913 ATP binding site [chemical binding]; other site 1134782003914 Walker B motif; other site 1134782003915 arginine finger; other site 1134782003916 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1134782003917 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1134782003918 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1134782003919 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1134782003920 heme-binding site [chemical binding]; other site 1134782003921 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1134782003922 FAD binding pocket [chemical binding]; other site 1134782003923 FAD binding motif [chemical binding]; other site 1134782003924 phosphate binding motif [ion binding]; other site 1134782003925 beta-alpha-beta structure motif; other site 1134782003926 NAD binding pocket [chemical binding]; other site 1134782003927 Heme binding pocket [chemical binding]; other site 1134782003928 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1134782003929 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1134782003930 dimer interface [polypeptide binding]; other site 1134782003931 active site 1134782003932 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1134782003933 folate binding site [chemical binding]; other site 1134782003934 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1134782003935 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1134782003936 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782003937 nucleotide binding site [chemical binding]; other site 1134782003938 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782003939 TPR motif; other site 1134782003940 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1134782003941 binding surface 1134782003942 TPR repeat; Region: TPR_11; pfam13414 1134782003943 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782003944 TPR motif; other site 1134782003945 binding surface 1134782003946 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1134782003947 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1134782003948 ligand binding site [chemical binding]; other site 1134782003949 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1134782003950 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782003951 Walker A/P-loop; other site 1134782003952 ATP binding site [chemical binding]; other site 1134782003953 Q-loop/lid; other site 1134782003954 ABC transporter signature motif; other site 1134782003955 Walker B; other site 1134782003956 D-loop; other site 1134782003957 H-loop/switch region; other site 1134782003958 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782003959 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782003960 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782003961 TM-ABC transporter signature motif; other site 1134782003962 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782003963 L-threonine dehydrogenase (TDH)-like; Region: THR_DH_like; cd08239 1134782003964 putative NAD(P) binding site [chemical binding]; other site 1134782003965 catalytic Zn binding site [ion binding]; other site 1134782003966 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1134782003967 active site 1134782003968 catalytic residues [active] 1134782003969 Predicted membrane protein [Function unknown]; Region: COG2259 1134782003970 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 1134782003971 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782003972 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 1134782003973 cis-biphenyl-2,3-dihydrodiol-2,3-dehydrogenase (BphB)-like, classical (c) SDRs; Region: BphB-like_SDR_c; cd05348 1134782003974 NAD binding site [chemical binding]; other site 1134782003975 active site 1134782003976 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 1134782003977 [2Fe-2S] cluster binding site [ion binding]; other site 1134782003978 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 1134782003979 inter-subunit interface; other site 1134782003980 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1134782003981 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 1134782003982 iron-sulfur cluster [ion binding]; other site 1134782003983 [2Fe-2S] cluster binding site [ion binding]; other site 1134782003984 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 1134782003985 beta subunit interface [polypeptide binding]; other site 1134782003986 alpha subunit interface [polypeptide binding]; other site 1134782003987 active site 1134782003988 substrate binding site [chemical binding]; other site 1134782003989 Fe binding site [ion binding]; other site 1134782003990 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1134782003991 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782003992 The C-terminal substrate binding domain of LysR-type transcriptional regulator HcaR in involved in 3-phenylpropionic acid catabolism, contains the type2 periplasmic binding fold; Region: PBP2_HcaR; cd08450 1134782003993 putative dimerization interface [polypeptide binding]; other site 1134782003994 putative substrate binding pocket [chemical binding]; other site 1134782003995 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1134782003996 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782003997 putative substrate translocation pore; other site 1134782003998 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 1134782003999 PRD domain; Region: PRD; pfam00874 1134782004000 PRD domain; Region: PRD; pfam00874 1134782004001 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1134782004002 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1134782004003 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1134782004004 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1134782004005 active site 1134782004006 dimerization interface [polypeptide binding]; other site 1134782004007 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1134782004008 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1134782004009 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 1134782004010 Rrf2 family protein; Region: rrf2_super; TIGR00738 1134782004011 cysteine desulfurase; Provisional; Region: PRK14012 1134782004012 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1134782004013 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782004014 catalytic residue [active] 1134782004015 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1134782004016 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1134782004017 trimerization site [polypeptide binding]; other site 1134782004018 active site 1134782004019 iron-sulfur cluster assembly protein; Provisional; Region: iscA; PRK09502 1134782004020 co-chaperone HscB; Provisional; Region: hscB; PRK05014 1134782004021 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1134782004022 HSP70 interaction site [polypeptide binding]; other site 1134782004023 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1134782004024 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1134782004025 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1134782004026 nucleotide binding site [chemical binding]; other site 1134782004027 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1134782004028 SBD interface [polypeptide binding]; other site 1134782004029 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1134782004030 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782004031 catalytic loop [active] 1134782004032 iron binding site [ion binding]; other site 1134782004033 hypothetical protein; Provisional; Region: PRK10721 1134782004034 aminopeptidase B; Provisional; Region: PRK05015 1134782004035 Peptidase; Region: DUF3663; pfam12404 1134782004036 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1134782004037 interface (dimer of trimers) [polypeptide binding]; other site 1134782004038 Substrate-binding/catalytic site; other site 1134782004039 Zn-binding sites [ion binding]; other site 1134782004040 enhanced serine sensitivity protein SseB; Provisional; Region: PRK11611 1134782004041 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1134782004042 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1134782004043 active site residue [active] 1134782004044 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1134782004045 active site residue [active] 1134782004046 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1134782004047 MG2 domain; Region: A2M_N; pfam01835 1134782004048 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1134782004049 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 1134782004050 surface patch; other site 1134782004051 thioester region; other site 1134782004052 specificity defining residues; other site 1134782004053 penicillin-binding protein 1C; Provisional; Region: PRK11240 1134782004054 Transglycosylase; Region: Transgly; pfam00912 1134782004055 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1134782004056 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 1134782004057 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1134782004058 active site 1134782004059 multimer interface [polypeptide binding]; other site 1134782004060 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1134782004061 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782004062 FeS/SAM binding site; other site 1134782004063 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1134782004064 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782004065 non-specific DNA binding site [nucleotide binding]; other site 1134782004066 salt bridge; other site 1134782004067 sequence-specific DNA binding site [nucleotide binding]; other site 1134782004068 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1134782004069 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1134782004070 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1134782004071 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1134782004072 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1134782004073 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1134782004074 dimer interface [polypeptide binding]; other site 1134782004075 motif 1; other site 1134782004076 active site 1134782004077 motif 2; other site 1134782004078 motif 3; other site 1134782004079 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1134782004080 anticodon binding site; other site 1134782004081 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1134782004082 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1134782004083 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cd00216 1134782004084 Trp docking motif [polypeptide binding]; other site 1134782004085 active site 1134782004086 GTP-binding protein Der; Reviewed; Region: PRK00093 1134782004087 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1134782004088 G1 box; other site 1134782004089 GTP/Mg2+ binding site [chemical binding]; other site 1134782004090 Switch I region; other site 1134782004091 G2 box; other site 1134782004092 Switch II region; other site 1134782004093 G3 box; other site 1134782004094 G4 box; other site 1134782004095 G5 box; other site 1134782004096 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1134782004097 G1 box; other site 1134782004098 GTP/Mg2+ binding site [chemical binding]; other site 1134782004099 Switch I region; other site 1134782004100 G2 box; other site 1134782004101 G3 box; other site 1134782004102 Switch II region; other site 1134782004103 G4 box; other site 1134782004104 G5 box; other site 1134782004105 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 1134782004106 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 1134782004107 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1134782004108 generic binding surface II; other site 1134782004109 generic binding surface I; other site 1134782004110 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1134782004111 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1134782004112 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1134782004113 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1134782004114 active site 1134782004115 GMP synthase; Reviewed; Region: guaA; PRK00074 1134782004116 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1134782004117 AMP/PPi binding site [chemical binding]; other site 1134782004118 candidate oxyanion hole; other site 1134782004119 catalytic triad [active] 1134782004120 potential glutamine specificity residues [chemical binding]; other site 1134782004121 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1134782004122 ATP Binding subdomain [chemical binding]; other site 1134782004123 Ligand Binding sites [chemical binding]; other site 1134782004124 Dimerization subdomain; other site 1134782004125 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1134782004126 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 1134782004127 MASE1; Region: MASE1; pfam05231 1134782004128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782004129 diguanylate cyclase; Region: GGDEF; smart00267 1134782004130 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782004131 exopolyphosphatase; Provisional; Region: PRK10854 1134782004132 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1134782004133 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 1134782004134 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1134782004135 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1134782004136 Catalytic C-terminal domain, first repeat, of prokaryotic polyphosphate kinase 1 and similar proteins; Region: PLDc_PPK1_C1; cd09114 1134782004137 domain interface [polypeptide binding]; other site 1134782004138 active site 1134782004139 catalytic site [active] 1134782004140 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1134782004141 putative active site [active] 1134782004142 catalytic site [active] 1134782004143 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1134782004144 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1134782004145 active site 1134782004146 substrate binding site [chemical binding]; other site 1134782004147 cosubstrate binding site; other site 1134782004148 catalytic site [active] 1134782004149 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1134782004150 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1134782004151 dimerization interface [polypeptide binding]; other site 1134782004152 putative ATP binding site [chemical binding]; other site 1134782004153 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782004154 active site 1134782004155 uracil transporter; Provisional; Region: PRK10720 1134782004156 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1134782004157 DNA replication initiation factor; Provisional; Region: PRK08084 1134782004158 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1134782004159 ArsC family; Region: ArsC; pfam03960 1134782004160 catalytic residues [active] 1134782004161 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1134782004162 Peptidase family M48; Region: Peptidase_M48; cl12018 1134782004163 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1134782004164 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1134782004165 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1134782004166 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 1134782004167 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782004168 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782004169 Walker A motif; other site 1134782004170 ATP binding site [chemical binding]; other site 1134782004171 Walker B motif; other site 1134782004172 arginine finger; other site 1134782004173 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782004174 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1134782004175 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1134782004176 hydrogenase 4 subunit H; Validated; Region: PRK08222 1134782004177 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782004178 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1134782004179 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1134782004180 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1134782004181 hydrogenase 4 subunit F; Validated; Region: PRK06458 1134782004182 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004183 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 1134782004184 hydrogenase 4 subunit D; Validated; Region: PRK06525 1134782004185 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004186 hydrogenase 4 subunit D; Validated; Region: PRK06525 1134782004187 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1134782004188 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1134782004189 NADH dehydrogenase; Region: NADHdh; cl00469 1134782004190 hydrogenase 4 subunit B; Validated; Region: PRK06521 1134782004191 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004192 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1134782004193 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782004194 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1134782004195 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1134782004196 catalytic triad [active] 1134782004197 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 1134782004198 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1134782004199 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1134782004200 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1134782004201 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1134782004202 dimer interface [polypeptide binding]; other site 1134782004203 active site 1134782004204 catalytic residue [active] 1134782004205 lipoprotein; Provisional; Region: PRK11679 1134782004206 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1134782004207 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1134782004208 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1134782004209 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1134782004210 ATP binding site [chemical binding]; other site 1134782004211 active site 1134782004212 substrate binding site [chemical binding]; other site 1134782004213 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1134782004214 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1134782004215 oligomeric interface; other site 1134782004216 putative active site [active] 1134782004217 homodimer interface [polypeptide binding]; other site 1134782004218 Predicted metalloprotease [General function prediction only]; Region: COG2321 1134782004219 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1134782004220 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1134782004221 Helicase; Region: Helicase_RecD; pfam05127 1134782004222 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1134782004223 Possible tRNA binding domain; Region: tRNA_bind_2; pfam13725 1134782004224 putative hydrolase; Provisional; Region: PRK11460 1134782004225 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1134782004226 hypothetical protein; Provisional; Region: PRK13664 1134782004227 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1134782004228 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1134782004229 metal binding site [ion binding]; metal-binding site 1134782004230 dimer interface [polypeptide binding]; other site 1134782004231 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1134782004232 ArsC family; Region: ArsC; pfam03960 1134782004233 putative catalytic residues [active] 1134782004234 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 1134782004235 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782004236 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1134782004237 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1134782004238 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782004239 dimerization interface [polypeptide binding]; other site 1134782004240 Histidine kinase; Region: HisKA_3; pfam07730 1134782004241 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782004242 ATP binding site [chemical binding]; other site 1134782004243 Mg2+ binding site [ion binding]; other site 1134782004244 G-X-G motif; other site 1134782004245 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1134782004246 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782004247 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782004248 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782004249 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1134782004250 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1134782004251 dimer interface [polypeptide binding]; other site 1134782004252 ADP-ribose binding site [chemical binding]; other site 1134782004253 active site 1134782004254 nudix motif; other site 1134782004255 metal binding site [ion binding]; metal-binding site 1134782004256 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1134782004257 transketolase; Reviewed; Region: PRK12753 1134782004258 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1134782004259 TPP-binding site [chemical binding]; other site 1134782004260 dimer interface [polypeptide binding]; other site 1134782004261 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1134782004262 PYR/PP interface [polypeptide binding]; other site 1134782004263 dimer interface [polypeptide binding]; other site 1134782004264 TPP binding site [chemical binding]; other site 1134782004265 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1134782004266 transaldolase-like protein; Provisional; Region: PTZ00411 1134782004267 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1134782004268 active site 1134782004269 dimer interface [polypeptide binding]; other site 1134782004270 catalytic residue [active] 1134782004271 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1134782004272 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1134782004273 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1134782004274 putative NAD(P) binding site [chemical binding]; other site 1134782004275 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1134782004276 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 1134782004277 putative hexamer interface [polypeptide binding]; other site 1134782004278 putative hexagonal pore; other site 1134782004279 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1134782004280 G1 box; other site 1134782004281 GTP/Mg2+ binding site [chemical binding]; other site 1134782004282 G2 box; other site 1134782004283 Switch I region; other site 1134782004284 G3 box; other site 1134782004285 Switch II region; other site 1134782004286 G4 box; other site 1134782004287 G5 box; other site 1134782004288 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 1134782004289 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutQ; COG4766 1134782004290 ethanolamine utilization cobalamin adenosyltransferase; Provisional; Region: PRK15020 1134782004291 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 1134782004292 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 1134782004293 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 1134782004294 Hexamer interface [polypeptide binding]; other site 1134782004295 Putative hexagonal pore residue; other site 1134782004296 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 1134782004297 Hexamer/Pentamer interface [polypeptide binding]; other site 1134782004298 central pore; other site 1134782004299 Ethanolamine utilization protein EutE-like; Region: ALDH_EutE; cd07121 1134782004300 putative catalytic cysteine [active] 1134782004301 Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]; Region: EutJ; COG4820 1134782004302 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782004303 nucleotide binding site [chemical binding]; other site 1134782004304 ethanol dehydrogenase EutG; Provisional; Region: PRK15454 1134782004305 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 1134782004306 active site 1134782004307 metal binding site [ion binding]; metal-binding site 1134782004308 Ethanolamine utilization protein [Amino acid transport and metabolism]; Region: EutH; COG3192 1134782004309 reactivating factor for ethanolamine ammonia lyase; Provisional; Region: eutA; PRK10719 1134782004310 Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]; Region: EutB; COG4303 1134782004311 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 1134782004312 Ethanolamine ammonia-lyase, small subunit [Amino acid transport and metabolism]; Region: EutC; COG4302 1134782004313 ethanolamine utilization protein EutL; Provisional; Region: PRK15405 1134782004314 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_EutL_repeat1; cd07049 1134782004315 putative hexamer interface [polypeptide binding]; other site 1134782004316 putative hexagonal pore; other site 1134782004317 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_EutL_repeat2; cd07050 1134782004318 putative hexamer interface [polypeptide binding]; other site 1134782004319 putative hexagonal pore; other site 1134782004320 carboxysome structural protein EutK; Provisional; Region: PRK15466 1134782004321 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 1134782004322 Hexamer interface [polypeptide binding]; other site 1134782004323 Hexagonal pore residue; other site 1134782004324 transcriptional regulator EutR; Provisional; Region: PRK10130 1134782004325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782004326 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782004327 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1134782004328 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1134782004329 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1134782004330 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1134782004331 active site 1134782004332 metal binding site [ion binding]; metal-binding site 1134782004333 putative acetyltransferase; Provisional; Region: PRK03624 1134782004334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782004335 Coenzyme A binding pocket [chemical binding]; other site 1134782004336 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1134782004337 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 1134782004338 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 1134782004339 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1134782004340 putative periplasmic esterase; Provisional; Region: PRK03642 1134782004341 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1134782004342 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1134782004343 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782004344 active site turn [active] 1134782004345 phosphorylation site [posttranslational modification] 1134782004346 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782004347 N-acetylmuramic acid 6-phosphate etherase; Region: TIGR00274 1134782004348 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1134782004349 putative active site [active] 1134782004350 transcriptional regulator MurR; Provisional; Region: PRK15482 1134782004351 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1134782004352 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1134782004353 putative active site [active] 1134782004354 short chain dehydrogenase; Provisional; Region: PRK08226 1134782004355 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1134782004356 NAD binding site [chemical binding]; other site 1134782004357 homotetramer interface [polypeptide binding]; other site 1134782004358 homodimer interface [polypeptide binding]; other site 1134782004359 active site 1134782004360 thiosulfate transporter subunit; Provisional; Region: PRK10852 1134782004361 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1134782004362 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1134782004363 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782004364 dimer interface [polypeptide binding]; other site 1134782004365 conserved gate region; other site 1134782004366 putative PBP binding loops; other site 1134782004367 ABC-ATPase subunit interface; other site 1134782004368 sulfate transport protein; Provisional; Region: cysT; CHL00187 1134782004369 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782004370 dimer interface [polypeptide binding]; other site 1134782004371 conserved gate region; other site 1134782004372 putative PBP binding loops; other site 1134782004373 ABC-ATPase subunit interface; other site 1134782004374 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 1134782004375 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1134782004376 Walker A/P-loop; other site 1134782004377 ATP binding site [chemical binding]; other site 1134782004378 Q-loop/lid; other site 1134782004379 ABC transporter signature motif; other site 1134782004380 Walker B; other site 1134782004381 D-loop; other site 1134782004382 H-loop/switch region; other site 1134782004383 TOBE-like domain; Region: TOBE_3; pfam12857 1134782004384 cysteine synthase B; Region: cysM; TIGR01138 1134782004385 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1134782004386 dimer interface [polypeptide binding]; other site 1134782004387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782004388 catalytic residue [active] 1134782004389 hypothetical protein; Provisional; Region: PRK10318 1134782004390 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1134782004391 dimer interface [polypeptide binding]; other site 1134782004392 pyridoxamine kinase; Validated; Region: PRK05756 1134782004393 pyridoxal binding site [chemical binding]; other site 1134782004394 ATP binding site [chemical binding]; other site 1134782004395 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1134782004396 HPr interaction site; other site 1134782004397 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1134782004398 active site 1134782004399 phosphorylation site [posttranslational modification] 1134782004400 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1134782004401 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1134782004402 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782004403 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1134782004404 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782004405 dimerization domain swap beta strand [polypeptide binding]; other site 1134782004406 regulatory protein interface [polypeptide binding]; other site 1134782004407 active site 1134782004408 regulatory phosphorylation site [posttranslational modification]; other site 1134782004409 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1134782004410 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1134782004411 dimer interface [polypeptide binding]; other site 1134782004412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782004413 catalytic residue [active] 1134782004414 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1134782004415 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 1134782004416 cell division protein ZipA; Provisional; Region: PRK03427 1134782004417 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 1134782004418 FtsZ protein binding site [polypeptide binding]; other site 1134782004419 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1134782004420 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1134782004421 nucleotide binding pocket [chemical binding]; other site 1134782004422 K-X-D-G motif; other site 1134782004423 catalytic site [active] 1134782004424 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1134782004425 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1134782004426 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1134782004427 Dimer interface [polypeptide binding]; other site 1134782004428 BRCT sequence motif; other site 1134782004429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3530 1134782004430 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1134782004431 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1134782004432 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782004433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782004434 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1134782004435 putative dimerization interface [polypeptide binding]; other site 1134782004436 hypothetical protein; Provisional; Region: PRK11528 1134782004437 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1134782004438 nucleoside transporter; Region: 2A0110; TIGR00889 1134782004439 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004440 putative substrate translocation pore; other site 1134782004441 XapX domain; Region: XapX; TIGR03510 1134782004442 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1134782004443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782004444 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 1134782004445 putative dimerization interface [polypeptide binding]; other site 1134782004446 putative substrate binding pocket [chemical binding]; other site 1134782004447 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1134782004448 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1134782004449 active site 1134782004450 HIGH motif; other site 1134782004451 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1134782004452 active site 1134782004453 KMSKS motif; other site 1134782004454 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782004455 salt bridge; other site 1134782004456 non-specific DNA binding site [nucleotide binding]; other site 1134782004457 sequence-specific DNA binding site [nucleotide binding]; other site 1134782004458 Putative transcription regulator (DUF1323); Region: DUF1323; pfam07037 1134782004459 MASE1; Region: MASE1; pfam05231 1134782004460 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782004461 diguanylate cyclase; Region: GGDEF; smart00267 1134782004462 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782004463 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1134782004464 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1134782004465 Nucleoside recognition; Region: Gate; pfam07670 1134782004466 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1134782004467 manganese transport protein MntH; Reviewed; Region: PRK00701 1134782004468 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1134782004469 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 1134782004470 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1134782004471 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1134782004472 Cl- selectivity filter; other site 1134782004473 Cl- binding residues [ion binding]; other site 1134782004474 pore gating glutamate residue; other site 1134782004475 dimer interface [polypeptide binding]; other site 1134782004476 glucokinase, proteobacterial type; Region: glk; TIGR00749 1134782004477 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782004478 nucleotide binding site [chemical binding]; other site 1134782004479 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782004480 active site 1134782004481 P-loop; other site 1134782004482 phosphorylation site [posttranslational modification] 1134782004483 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1134782004484 aminopeptidase; Provisional; Region: PRK09795 1134782004485 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1134782004486 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 1134782004487 active site 1134782004488 exoaminopeptidase; Provisional; Region: PRK09961 1134782004489 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1134782004490 oligomer interface [polypeptide binding]; other site 1134782004491 active site 1134782004492 metal binding site [ion binding]; metal-binding site 1134782004493 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782004494 dimerization domain swap beta strand [polypeptide binding]; other site 1134782004495 regulatory protein interface [polypeptide binding]; other site 1134782004496 active site 1134782004497 regulatory phosphorylation site [posttranslational modification]; other site 1134782004498 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1134782004499 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1134782004500 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782004501 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1134782004502 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782004503 active site 1134782004504 phosphorylation site [posttranslational modification] 1134782004505 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782004506 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782004507 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1134782004508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782004509 active site 1134782004510 phosphorylation site [posttranslational modification] 1134782004511 intermolecular recognition site; other site 1134782004512 dimerization interface [polypeptide binding]; other site 1134782004513 LytTr DNA-binding domain; Region: LytTR; pfam04397 1134782004514 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1134782004515 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1134782004516 GAF domain; Region: GAF; pfam01590 1134782004517 Histidine kinase; Region: His_kinase; pfam06580 1134782004518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782004519 ATP binding site [chemical binding]; other site 1134782004520 Mg2+ binding site [ion binding]; other site 1134782004521 G-X-G motif; other site 1134782004522 aminotransferase; Validated; Region: PRK08175 1134782004523 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782004524 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782004525 homodimer interface [polypeptide binding]; other site 1134782004526 catalytic residue [active] 1134782004527 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1134782004528 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1134782004529 putative acyl-acceptor binding pocket; other site 1134782004530 Protein of unknown function (DUF2545); Region: DUF2545; pfam10810 1134782004531 hypothetical protein; Provisional; Region: PRK10316 1134782004532 YfdX protein; Region: YfdX; pfam10938 1134782004533 formyl-coenzyme A transferase; Provisional; Region: PRK05398 1134782004534 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1134782004535 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 1134782004536 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1134782004537 PYR/PP interface [polypeptide binding]; other site 1134782004538 dimer interface [polypeptide binding]; other site 1134782004539 TPP binding site [chemical binding]; other site 1134782004540 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782004541 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 1134782004542 TPP-binding site; other site 1134782004543 dimer interface [polypeptide binding]; other site 1134782004544 putative transporter YfdV; Provisional; Region: PRK09903 1134782004545 putative CoA-transferase; Provisional; Region: PRK11430 1134782004546 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1134782004547 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional; Region: PRK09959 1134782004548 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782004549 substrate binding pocket [chemical binding]; other site 1134782004550 membrane-bound complex binding site; other site 1134782004551 hinge residues; other site 1134782004552 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782004553 substrate binding pocket [chemical binding]; other site 1134782004554 membrane-bound complex binding site; other site 1134782004555 hinge residues; other site 1134782004556 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782004557 dimer interface [polypeptide binding]; other site 1134782004558 phosphorylation site [posttranslational modification] 1134782004559 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782004560 ATP binding site [chemical binding]; other site 1134782004561 Mg2+ binding site [ion binding]; other site 1134782004562 G-X-G motif; other site 1134782004563 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782004564 active site 1134782004565 phosphorylation site [posttranslational modification] 1134782004566 intermolecular recognition site; other site 1134782004567 dimerization interface [polypeptide binding]; other site 1134782004568 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782004569 putative binding surface; other site 1134782004570 active site 1134782004571 DNA-binding transcriptional activator EvgA; Provisional; Region: PRK09958 1134782004572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782004573 active site 1134782004574 phosphorylation site [posttranslational modification] 1134782004575 intermolecular recognition site; other site 1134782004576 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782004577 DNA binding residues [nucleotide binding] 1134782004578 dimerization interface [polypeptide binding]; other site 1134782004579 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1134782004580 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782004581 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782004582 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1134782004583 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004584 putative substrate translocation pore; other site 1134782004585 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004586 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1134782004587 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1134782004588 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782004589 catalytic residue [active] 1134782004590 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1134782004591 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782004592 DNA binding site [nucleotide binding] 1134782004593 domain linker motif; other site 1134782004594 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1134782004595 Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_sucrose_transcription_regulator; cd06288 1134782004596 putative dimerization interface [polypeptide binding]; other site 1134782004597 putative ligand binding site [chemical binding]; other site 1134782004598 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 1134782004599 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1134782004600 substrate binding [chemical binding]; other site 1134782004601 active site 1134782004602 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1134782004603 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782004604 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 1134782004605 putative substrate binding site [chemical binding]; other site 1134782004606 putative ATP binding site [chemical binding]; other site 1134782004607 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1134782004608 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004609 putative substrate translocation pore; other site 1134782004610 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1134782004611 hypothetical protein; Region: PHA00626 1134782004612 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782004613 Protein of unknown function (DUF2737); Region: DUF2737; pfam10930 1134782004614 Protein of unknown function (DUF2856); Region: DUF2856; pfam11043 1134782004615 ERF superfamily; Region: ERF; pfam04404 1134782004616 Bacteriophage lambda Kil protein; Region: Lambda_Kil; pfam06301 1134782004617 Lambda Phage CIII; Region: Lambda_CIII; pfam02061 1134782004618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782004619 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782004620 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782004621 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782004622 Head binding; Region: Head_binding; pfam09008 1134782004623 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1134782004624 integrase; Provisional; Region: PRK09692 1134782004625 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782004626 active site 1134782004627 Int/Topo IB signature motif; other site 1134782004628 Formate/nitrite family of transporters [Inorganic ion transport and metabolism]; Region: FocA; COG2116 1134782004629 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 1134782004630 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 1134782004631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1134782004632 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1134782004633 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1134782004634 dimer interface [polypeptide binding]; other site 1134782004635 active site 1134782004636 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1134782004637 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782004638 substrate binding site [chemical binding]; other site 1134782004639 oxyanion hole (OAH) forming residues; other site 1134782004640 trimer interface [polypeptide binding]; other site 1134782004641 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1134782004642 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1134782004643 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1134782004644 catalytic core [active] 1134782004645 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782004646 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 1134782004647 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782004648 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782004649 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782004650 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782004651 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782004652 Fimbrial protein; Region: Fimbrial; cl01416 1134782004653 Fimbrial protein; Region: Fimbrial; cl01416 1134782004654 Fimbrial protein; Region: Fimbrial; cl01416 1134782004655 Protein of unknown function (DUF2544); Region: DUF2544; pfam11245 1134782004656 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782004657 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782004658 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782004659 hypothetical protein; Provisional; Region: PRK04946 1134782004660 Smr domain; Region: Smr; pfam01713 1134782004661 HemK family putative methylases; Region: hemK_fam; TIGR00536 1134782004662 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782004663 S-adenosylmethionine binding site [chemical binding]; other site 1134782004664 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1134782004665 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1134782004666 Tetramer interface [polypeptide binding]; other site 1134782004667 active site 1134782004668 FMN-binding site [chemical binding]; other site 1134782004669 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1134782004670 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1134782004671 hypothetical protein; Provisional; Region: PRK10621 1134782004672 Predicted permeases [General function prediction only]; Region: COG0730 1134782004673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3101 1134782004674 YfcL protein; Region: YfcL; pfam08891 1134782004675 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1134782004676 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1134782004677 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1134782004678 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1134782004679 dimer interface [polypeptide binding]; other site 1134782004680 active site 1134782004681 putative transporter; Provisional; Region: PRK12382 1134782004682 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004683 putative substrate translocation pore; other site 1134782004684 flagella biosynthesis regulator; Provisional; Region: flk; PRK10715 1134782004685 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 1134782004686 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1134782004687 ligand binding site [chemical binding]; other site 1134782004688 NAD binding site [chemical binding]; other site 1134782004689 catalytic site [active] 1134782004690 homodimer interface [polypeptide binding]; other site 1134782004691 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 1134782004692 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1134782004693 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1134782004694 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1134782004695 dimerization interface 3.5A [polypeptide binding]; other site 1134782004696 active site 1134782004697 hypothetical protein; Provisional; Region: PRK10847 1134782004698 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1134782004699 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1134782004700 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1134782004701 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1134782004702 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782004703 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782004704 cell division protein DedD; Provisional; Region: PRK11633 1134782004705 Sporulation related domain; Region: SPOR; pfam05036 1134782004706 colicin V production protein; Provisional; Region: PRK10845 1134782004707 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1134782004708 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1134782004709 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1134782004710 active site 1134782004711 tetramer interface [polypeptide binding]; other site 1134782004712 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782004713 active site 1134782004714 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1134782004715 Flavoprotein; Region: Flavoprotein; pfam02441 1134782004716 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 1134782004717 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782004718 substrate binding pocket [chemical binding]; other site 1134782004719 membrane-bound complex binding site; other site 1134782004720 hinge residues; other site 1134782004721 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 1134782004722 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782004723 substrate binding pocket [chemical binding]; other site 1134782004724 membrane-bound complex binding site; other site 1134782004725 hinge residues; other site 1134782004726 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782004727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782004728 dimer interface [polypeptide binding]; other site 1134782004729 conserved gate region; other site 1134782004730 putative PBP binding loops; other site 1134782004731 ABC-ATPase subunit interface; other site 1134782004732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782004733 dimer interface [polypeptide binding]; other site 1134782004734 conserved gate region; other site 1134782004735 putative PBP binding loops; other site 1134782004736 ABC-ATPase subunit interface; other site 1134782004737 histidine/lysine/arginine/ornithine transporter subunit; Provisional; Region: PRK10619 1134782004738 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1134782004739 Walker A/P-loop; other site 1134782004740 ATP binding site [chemical binding]; other site 1134782004741 Q-loop/lid; other site 1134782004742 ABC transporter signature motif; other site 1134782004743 Walker B; other site 1134782004744 D-loop; other site 1134782004745 H-loop/switch region; other site 1134782004746 putative transposase; Provisional; Region: PRK09857 1134782004747 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1134782004748 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1134782004749 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1134782004750 putative NAD(P) binding site [chemical binding]; other site 1134782004751 putative active site [active] 1134782004752 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1134782004753 homooctamer interface [polypeptide binding]; other site 1134782004754 active site 1134782004755 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1134782004756 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1134782004757 C-terminal domain interface [polypeptide binding]; other site 1134782004758 GSH binding site (G-site) [chemical binding]; other site 1134782004759 dimer interface [polypeptide binding]; other site 1134782004760 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1134782004761 N-terminal domain interface [polypeptide binding]; other site 1134782004762 putative dimer interface [polypeptide binding]; other site 1134782004763 active site 1134782004764 glutathione S-transferase; Provisional; Region: PRK15113 1134782004765 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1134782004766 C-terminal domain interface [polypeptide binding]; other site 1134782004767 GSH binding site (G-site) [chemical binding]; other site 1134782004768 dimer interface [polypeptide binding]; other site 1134782004769 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1134782004770 N-terminal domain interface [polypeptide binding]; other site 1134782004771 putative dimer interface [polypeptide binding]; other site 1134782004772 putative substrate binding pocket (H-site) [chemical binding]; other site 1134782004773 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1134782004774 active site 1134782004775 metal binding site [ion binding]; metal-binding site 1134782004776 homotetramer interface [polypeptide binding]; other site 1134782004777 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1134782004778 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_38; cd04697 1134782004779 nudix motif; other site 1134782004780 hypothetical protein; Provisional; Region: PRK11588 1134782004781 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1134782004782 phosphate acetyltransferase; Reviewed; Region: PRK05632 1134782004783 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1134782004784 DRTGG domain; Region: DRTGG; pfam07085 1134782004785 phosphate acetyltransferase; Region: pta; TIGR00651 1134782004786 propionate/acetate kinase; Provisional; Region: PRK12379 1134782004787 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1134782004788 hypothetical protein; Provisional; Region: PRK01816 1134782004789 hypothetical protein; Validated; Region: PRK05445 1134782004790 putative phosphatase; Provisional; Region: PRK11587 1134782004791 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1134782004792 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782004793 motif II; other site 1134782004794 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1134782004795 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1134782004796 TrkA-C domain; Region: TrkA_C; pfam02080 1134782004797 TrkA-C domain; Region: TrkA_C; pfam02080 1134782004798 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1134782004799 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782004800 Zn2+ binding site [ion binding]; other site 1134782004801 Mg2+ binding site [ion binding]; other site 1134782004802 aminotransferase AlaT; Validated; Region: PRK09265 1134782004803 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782004804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782004805 homodimer interface [polypeptide binding]; other site 1134782004806 catalytic residue [active] 1134782004807 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1134782004808 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782004809 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1134782004810 putative dimerization interface [polypeptide binding]; other site 1134782004811 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1134782004812 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1134782004813 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1134782004814 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1134782004815 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1134782004816 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1134782004817 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1134782004818 putative dimer interface [polypeptide binding]; other site 1134782004819 [2Fe-2S] cluster binding site [ion binding]; other site 1134782004820 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1134782004821 SLBB domain; Region: SLBB; pfam10531 1134782004822 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 1134782004823 NADH dehydrogenase/NADH:ubiquinone oxidoreductase 75 kD subunit (chain G) [Energy production and conversion]; Region: NuoG; COG1034 1134782004824 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782004825 catalytic loop [active] 1134782004826 iron binding site [ion binding]; other site 1134782004827 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1134782004828 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1134782004829 [4Fe-4S] binding site [ion binding]; other site 1134782004830 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1134782004831 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1134782004832 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1134782004833 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782004834 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782004835 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1134782004836 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1134782004837 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1134782004838 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1134782004839 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004840 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1134782004841 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004842 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1134782004843 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1134782004844 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 1134782004845 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1134782004846 potential frameshift: common BLAST hit: gi|218695872|ref|YP_002403539.1| deubiquitinase 1134782004847 ribonuclease BN; Region: true_RNase_BN; TIGR02649 1134782004848 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782004849 Coenzyme A binding pocket [chemical binding]; other site 1134782004850 hypothetical protein; Provisional; Region: PRK10404 1134782004851 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1134782004852 isochorismate synthases; Region: isochor_syn; TIGR00543 1134782004853 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1134782004854 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1134782004855 dimer interface [polypeptide binding]; other site 1134782004856 tetramer interface [polypeptide binding]; other site 1134782004857 PYR/PP interface [polypeptide binding]; other site 1134782004858 TPP binding site [chemical binding]; other site 1134782004859 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1134782004860 TPP-binding site; other site 1134782004861 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1134782004862 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1134782004863 catalytic site [active] 1134782004864 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782004865 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1134782004866 substrate binding site [chemical binding]; other site 1134782004867 oxyanion hole (OAH) forming residues; other site 1134782004868 trimer interface [polypeptide binding]; other site 1134782004869 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1134782004870 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1134782004871 active site 1134782004872 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1134782004873 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1134782004874 acyl-activating enzyme (AAE) consensus motif; other site 1134782004875 putative AMP binding site [chemical binding]; other site 1134782004876 putative active site [active] 1134782004877 putative CoA binding site [chemical binding]; other site 1134782004878 signal transduction protein PmrD; Provisional; Region: PRK15450 1134782004879 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1134782004880 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1134782004881 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1134782004882 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1134782004883 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1134782004884 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 1134782004885 putative active site [active] 1134782004886 putative catalytic site [active] 1134782004887 putative Zn binding site [ion binding]; other site 1134782004888 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1134782004889 ArnA, N-terminal formyltransferase domain; Region: FMT_core_ArnA_N; cd08644 1134782004890 substrate binding site [chemical binding]; other site 1134782004891 cosubstrate binding site; other site 1134782004892 catalytic site [active] 1134782004893 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1134782004894 active site 1134782004895 hexamer interface [polypeptide binding]; other site 1134782004896 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1134782004897 NAD binding site [chemical binding]; other site 1134782004898 substrate binding site [chemical binding]; other site 1134782004899 active site 1134782004900 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1134782004901 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1134782004902 Ligand binding site; other site 1134782004903 Putative Catalytic site; other site 1134782004904 DXD motif; other site 1134782004905 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1134782004906 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1134782004907 inhibitor-cofactor binding pocket; inhibition site 1134782004908 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782004909 catalytic residue [active] 1134782004910 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1134782004911 catalytic core [active] 1134782004912 nucleoside triphosphatase NudI; Provisional; Region: PRK15472 1134782004913 YfaZ precursor; Region: YfaZ; pfam07437 1134782004914 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1134782004915 hypothetical protein; Provisional; Region: PRK03673 1134782004916 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1134782004917 putative MPT binding site; other site 1134782004918 Competence-damaged protein; Region: CinA; cl00666 1134782004919 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1134782004920 hypothetical protein; Provisional; Region: PRK09956 1134782004921 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1134782004922 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1134782004923 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782004924 Cysteine-rich domain; Region: CCG; pfam02754 1134782004925 Cysteine-rich domain; Region: CCG; pfam02754 1134782004926 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; COG3075 1134782004927 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1134782004928 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1134782004929 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1134782004930 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1134782004931 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1134782004932 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782004933 putative substrate translocation pore; other site 1134782004934 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1134782004935 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1134782004936 active site 1134782004937 catalytic site [active] 1134782004938 metal binding site [ion binding]; metal-binding site 1134782004939 hypothetical protein; Provisional; Region: PRK09729 1134782004940 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782004941 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782004942 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782004943 hypothetical protein; Provisional; Region: PRK09902 1134782004944 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1134782004945 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782004946 catalytic loop [active] 1134782004947 iron binding site [ion binding]; other site 1134782004948 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1134782004949 dimer interface [polypeptide binding]; other site 1134782004950 putative radical transfer pathway; other site 1134782004951 diiron center [ion binding]; other site 1134782004952 tyrosyl radical; other site 1134782004953 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1134782004954 ATP cone domain; Region: ATP-cone; pfam03477 1134782004955 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1134782004956 active site 1134782004957 dimer interface [polypeptide binding]; other site 1134782004958 catalytic residues [active] 1134782004959 effector binding site; other site 1134782004960 R2 peptide binding site; other site 1134782004961 adhesin; Provisional; Region: PRK09752 1134782004962 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782004963 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782004964 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1134782004965 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782004966 S-adenosylmethionine binding site [chemical binding]; other site 1134782004967 DNA gyrase subunit A; Validated; Region: PRK05560 1134782004968 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1134782004969 CAP-like domain; other site 1134782004970 active site 1134782004971 primary dimer interface [polypeptide binding]; other site 1134782004972 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004973 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004974 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004975 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004976 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004977 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1134782004978 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4685 1134782004979 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3234 1134782004980 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 1134782004981 MG2 domain; Region: A2M_N; pfam01835 1134782004982 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 1134782004983 Alpha-2-macroglobulin family; Region: A2M; pfam00207 1134782004984 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1134782004985 Predicted secreted protein [Function unknown]; Region: COG5445 1134782004986 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1134782004987 Predicted secreted protein [Function unknown]; Region: COG5445 1134782004988 Stage II sporulation protein; Region: SpoIID; pfam08486 1134782004989 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 1134782004990 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 1134782004991 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 1134782004992 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 1134782004993 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782004994 dimer interface [polypeptide binding]; other site 1134782004995 phosphorylation site [posttranslational modification] 1134782004996 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782004997 ATP binding site [chemical binding]; other site 1134782004998 Mg2+ binding site [ion binding]; other site 1134782004999 G-X-G motif; other site 1134782005000 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 1134782005001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005002 active site 1134782005003 phosphorylation site [posttranslational modification] 1134782005004 intermolecular recognition site; other site 1134782005005 dimerization interface [polypeptide binding]; other site 1134782005006 transcriptional regulator RcsB; Provisional; Region: PRK10840 1134782005007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005008 active site 1134782005009 phosphorylation site [posttranslational modification] 1134782005010 intermolecular recognition site; other site 1134782005011 dimerization interface [polypeptide binding]; other site 1134782005012 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782005013 DNA binding residues [nucleotide binding] 1134782005014 dimerization interface [polypeptide binding]; other site 1134782005015 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 1134782005016 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782005017 ATP binding site [chemical binding]; other site 1134782005018 G-X-G motif; other site 1134782005019 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782005020 putative binding surface; other site 1134782005021 active site 1134782005022 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782005023 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1134782005024 trimer interface [polypeptide binding]; other site 1134782005025 eyelet of channel; other site 1134782005026 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1134782005027 ApbE family; Region: ApbE; pfam02424 1134782005028 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1134782005029 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1134782005030 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782005031 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782005032 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1134782005033 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1134782005034 DNA binding site [nucleotide binding] 1134782005035 active site 1134782005036 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1134782005037 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 1134782005038 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1134782005039 Walker A/P-loop; other site 1134782005040 ATP binding site [chemical binding]; other site 1134782005041 Q-loop/lid; other site 1134782005042 ABC transporter signature motif; other site 1134782005043 Walker B; other site 1134782005044 D-loop; other site 1134782005045 H-loop/switch region; other site 1134782005046 malate:quinone oxidoreductase; Validated; Region: PRK05257 1134782005047 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 1134782005048 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cd00242 1134782005049 secondary substrate binding site; other site 1134782005050 primary substrate binding site; other site 1134782005051 inhibition loop; other site 1134782005052 dimerization interface [polypeptide binding]; other site 1134782005053 tRNA synthetases class I (R); Region: tRNA-synt_1d; pfam00750 1134782005054 ferredoxin-type protein; Provisional; Region: PRK10194 1134782005055 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 1134782005056 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1134782005057 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1134782005058 [4Fe-4S] binding site [ion binding]; other site 1134782005059 molybdopterin cofactor binding site; other site 1134782005060 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1134782005061 molybdopterin cofactor binding site; other site 1134782005062 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1134782005063 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1134782005064 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1134782005065 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1134782005066 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 1134782005067 cytochrome c-type protein NapC; Provisional; Region: PRK10617 1134782005068 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1134782005069 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1134782005070 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1134782005071 Walker A/P-loop; other site 1134782005072 ATP binding site [chemical binding]; other site 1134782005073 Q-loop/lid; other site 1134782005074 ABC transporter signature motif; other site 1134782005075 Walker B; other site 1134782005076 D-loop; other site 1134782005077 H-loop/switch region; other site 1134782005078 heme exporter protein CcmB; Region: ccmB; TIGR01190 1134782005079 heme exporter protein CcmC; Region: ccmC; TIGR01191 1134782005080 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1134782005081 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1134782005082 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1134782005083 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 1134782005084 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1134782005085 catalytic residues [active] 1134782005086 central insert; other site 1134782005087 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1134782005088 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1134782005089 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782005090 binding surface 1134782005091 TPR motif; other site 1134782005092 transcriptional regulator NarP; Provisional; Region: PRK10403 1134782005093 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005094 active site 1134782005095 phosphorylation site [posttranslational modification] 1134782005096 intermolecular recognition site; other site 1134782005097 dimerization interface [polypeptide binding]; other site 1134782005098 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782005099 DNA binding residues [nucleotide binding] 1134782005100 dimerization interface [polypeptide binding]; other site 1134782005101 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1134782005102 hypothetical protein; Provisional; Region: PRK09945 1134782005103 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782005104 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782005105 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782005106 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782005107 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1134782005108 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1134782005109 Sulfatase; Region: Sulfatase; pfam00884 1134782005110 hypothetical protein; Provisional; Region: PRK13689 1134782005111 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1134782005112 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1134782005113 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1134782005114 5S rRNA interface [nucleotide binding]; other site 1134782005115 CTC domain interface [polypeptide binding]; other site 1134782005116 L16 interface [polypeptide binding]; other site 1134782005117 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1134782005118 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782005119 ATP binding site [chemical binding]; other site 1134782005120 putative Mg++ binding site [ion binding]; other site 1134782005121 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782005122 nucleotide binding region [chemical binding]; other site 1134782005123 ATP-binding site [chemical binding]; other site 1134782005124 Ribosomal L40e family; Region: Ribosomal_L40e; cl00671 1134782005125 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1134782005126 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782005127 RNA binding surface [nucleotide binding]; other site 1134782005128 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1134782005129 active site 1134782005130 uracil binding [chemical binding]; other site 1134782005131 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005132 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1134782005133 putative substrate translocation pore; other site 1134782005134 hypothetical protein; Provisional; Region: PRK11835 1134782005135 microcin C ABC transporter ATP-binding protein YejF; Provisional; Region: PRK15134 1134782005136 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782005137 Walker A/P-loop; other site 1134782005138 ATP binding site [chemical binding]; other site 1134782005139 Q-loop/lid; other site 1134782005140 ABC transporter signature motif; other site 1134782005141 Walker B; other site 1134782005142 D-loop; other site 1134782005143 H-loop/switch region; other site 1134782005144 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1134782005145 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782005146 Walker A/P-loop; other site 1134782005147 ATP binding site [chemical binding]; other site 1134782005148 Q-loop/lid; other site 1134782005149 ABC transporter signature motif; other site 1134782005150 Walker B; other site 1134782005151 D-loop; other site 1134782005152 H-loop/switch region; other site 1134782005153 microcin C ABC transporter permease; Provisional; Region: PRK15021 1134782005154 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782005155 dimer interface [polypeptide binding]; other site 1134782005156 conserved gate region; other site 1134782005157 ABC-ATPase subunit interface; other site 1134782005158 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1134782005159 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782005160 dimer interface [polypeptide binding]; other site 1134782005161 conserved gate region; other site 1134782005162 putative PBP binding loops; other site 1134782005163 ABC-ATPase subunit interface; other site 1134782005164 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1134782005165 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1134782005166 phage resistance protein; Provisional; Region: PRK10551 1134782005167 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1134782005168 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782005169 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 1134782005170 NlpC/P60 family; Region: NLPC_P60; pfam00877 1134782005171 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1134782005172 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1134782005173 active site 1134782005174 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1134782005175 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1134782005176 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1134782005177 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1134782005178 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1134782005179 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1134782005180 elongation factor P; Provisional; Region: PRK04542 1134782005181 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1134782005182 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1134782005183 RNA binding site [nucleotide binding]; other site 1134782005184 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1134782005185 RNA binding site [nucleotide binding]; other site 1134782005186 Flagellin N-methylase; Region: FliB; pfam03692 1134782005187 sugar efflux transporter B; Provisional; Region: PRK15011 1134782005188 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005189 putative substrate translocation pore; other site 1134782005190 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1134782005191 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782005192 active site 1134782005193 phosphorylation site [posttranslational modification] 1134782005194 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782005195 dimerization domain swap beta strand [polypeptide binding]; other site 1134782005196 regulatory protein interface [polypeptide binding]; other site 1134782005197 active site 1134782005198 regulatory phosphorylation site [posttranslational modification]; other site 1134782005199 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1134782005200 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1134782005201 putative substrate binding site [chemical binding]; other site 1134782005202 putative ATP binding site [chemical binding]; other site 1134782005203 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1134782005204 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1134782005205 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782005206 active site 1134782005207 P-loop; other site 1134782005208 phosphorylation site [posttranslational modification] 1134782005209 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1134782005210 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 1134782005211 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782005212 substrate binding site [chemical binding]; other site 1134782005213 ATP binding site [chemical binding]; other site 1134782005214 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 1134782005215 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1134782005216 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1134782005217 Nucleoside recognition; Region: Gate; pfam07670 1134782005218 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1134782005219 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 1134782005220 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1134782005221 ligand binding site [chemical binding]; other site 1134782005222 flexible hinge region; other site 1134782005223 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1134782005224 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1134782005225 active site 1134782005226 tetramer interface [polypeptide binding]; other site 1134782005227 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1134782005228 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1134782005229 Nucleoside recognition; Region: Gate; pfam07670 1134782005230 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1134782005231 putative kinase; Provisional; Region: PRK09954 1134782005232 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782005233 putative DNA binding site [nucleotide binding]; other site 1134782005234 putative Zn2+ binding site [ion binding]; other site 1134782005235 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 1134782005236 substrate binding site [chemical binding]; other site 1134782005237 ATP binding site [chemical binding]; other site 1134782005238 endonuclease IV; Provisional; Region: PRK01060 1134782005239 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1134782005240 AP (apurinic/apyrimidinic) site pocket; other site 1134782005241 DNA interaction; other site 1134782005242 Metal-binding active site; metal-binding site 1134782005243 conserved hypothetical integral membrane protein; Region: TIGR00698 1134782005244 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1134782005245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782005246 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1134782005247 putative dimerization interface [polypeptide binding]; other site 1134782005248 lysine transporter; Provisional; Region: PRK10836 1134782005249 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 1134782005250 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782005251 N-terminal plug; other site 1134782005252 ligand-binding site [chemical binding]; other site 1134782005253 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1134782005254 S-formylglutathione hydrolase; Region: PLN02442 1134782005255 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1134782005256 homodecamer interface [polypeptide binding]; other site 1134782005257 GTP cyclohydrolase I; Provisional; Region: PLN03044 1134782005258 active site 1134782005259 putative catalytic site residues [active] 1134782005260 zinc binding site [ion binding]; other site 1134782005261 GTP-CH-I/GFRP interaction surface; other site 1134782005262 Predicted membrane protein [Function unknown]; Region: COG2311 1134782005263 hypothetical protein; Provisional; Region: PRK10835 1134782005264 DNA-binding transcriptional regulator GalS; Provisional; Region: PRK10401 1134782005265 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782005266 DNA binding site [nucleotide binding] 1134782005267 domain linker motif; other site 1134782005268 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1134782005269 dimerization interface (closed form) [polypeptide binding]; other site 1134782005270 ligand binding site [chemical binding]; other site 1134782005271 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional; Region: PRK15395 1134782005272 Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species; Region: PBP1_GGBP; cd01539 1134782005273 ligand binding site [chemical binding]; other site 1134782005274 calcium binding site [ion binding]; other site 1134782005275 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782005276 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional; Region: PRK10982 1134782005277 Walker A/P-loop; other site 1134782005278 ATP binding site [chemical binding]; other site 1134782005279 Q-loop/lid; other site 1134782005280 ABC transporter signature motif; other site 1134782005281 Walker B; other site 1134782005282 D-loop; other site 1134782005283 H-loop/switch region; other site 1134782005284 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782005285 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782005286 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782005287 TM-ABC transporter signature motif; other site 1134782005288 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1134782005289 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 1134782005290 homodimer interface [polypeptide binding]; other site 1134782005291 active site 1134782005292 FMN binding site [chemical binding]; other site 1134782005293 substrate binding site [chemical binding]; other site 1134782005294 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782005295 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1134782005296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1134782005297 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782005298 Protein of unknown function (DUF2542); Region: DUF2542; pfam10808 1134782005299 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1134782005300 putative active site [active] 1134782005301 cytidine deaminase; Provisional; Region: PRK09027 1134782005302 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1134782005303 active site 1134782005304 catalytic motif [active] 1134782005305 Zn binding site [ion binding]; other site 1134782005306 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1134782005307 active site 1134782005308 catalytic motif [active] 1134782005309 Zn binding site [ion binding]; other site 1134782005310 hypothetical protein; Provisional; Region: PRK10711 1134782005311 hypothetical protein; Provisional; Region: PRK01821 1134782005312 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1134782005313 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1134782005314 FMN binding site [chemical binding]; other site 1134782005315 active site 1134782005316 catalytic residues [active] 1134782005317 substrate binding site [chemical binding]; other site 1134782005318 multidrug resistance outer membrane protein MdtQ; Provisional; Region: PRK11459 1134782005319 oxidoreductase; Provisional; Region: PRK12743 1134782005320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1134782005321 NAD(P) binding site [chemical binding]; other site 1134782005322 active site 1134782005323 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1134782005324 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1134782005325 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1134782005326 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1134782005327 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1134782005328 D-lactate dehydrogenase; Provisional; Region: PRK11183 1134782005329 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782005330 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1134782005331 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1134782005332 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1134782005333 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1134782005334 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1134782005335 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782005336 dimer interface [polypeptide binding]; other site 1134782005337 conserved gate region; other site 1134782005338 ABC-ATPase subunit interface; other site 1134782005339 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1134782005340 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1134782005341 Walker A/P-loop; other site 1134782005342 ATP binding site [chemical binding]; other site 1134782005343 Q-loop/lid; other site 1134782005344 ABC transporter signature motif; other site 1134782005345 Walker B; other site 1134782005346 D-loop; other site 1134782005347 H-loop/switch region; other site 1134782005348 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1134782005349 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1134782005350 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782005351 dimer interface [polypeptide binding]; other site 1134782005352 conserved gate region; other site 1134782005353 putative PBP binding loops; other site 1134782005354 ABC-ATPase subunit interface; other site 1134782005355 hypothetical protein; Provisional; Region: PRK13681 1134782005356 transcriptional regulator MirA; Provisional; Region: PRK15043 1134782005357 Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators; Region: HTH_MlrA-like; cd04763 1134782005358 DNA binding residues [nucleotide binding] 1134782005359 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1134782005360 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1134782005361 GAF domain; Region: GAF; pfam01590 1134782005362 Histidine kinase; Region: His_kinase; pfam06580 1134782005363 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782005364 ATP binding site [chemical binding]; other site 1134782005365 Mg2+ binding site [ion binding]; other site 1134782005366 G-X-G motif; other site 1134782005367 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1134782005368 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005369 active site 1134782005370 phosphorylation site [posttranslational modification] 1134782005371 intermolecular recognition site; other site 1134782005372 dimerization interface [polypeptide binding]; other site 1134782005373 LytTr DNA-binding domain; Region: LytTR; pfam04397 1134782005374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 1134782005375 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1134782005376 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 1134782005377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4808 1134782005378 VWA domain containing CoxE-like protein; Region: VWA_CoxE; pfam05762 1134782005379 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1134782005380 metal ion-dependent adhesion site (MIDAS); other site 1134782005381 MoxR-like ATPases [General function prediction only]; Region: COG0714 1134782005382 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782005383 Walker A motif; other site 1134782005384 ATP binding site [chemical binding]; other site 1134782005385 Walker B motif; other site 1134782005386 arginine finger; other site 1134782005387 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 1134782005388 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 1134782005389 Domain of unknown function (DUF4132); Region: DUF4132; pfam13569 1134782005390 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1134782005391 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1134782005392 active site 1134782005393 HIGH motif; other site 1134782005394 KMSKS motif; other site 1134782005395 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1134782005396 tRNA binding surface [nucleotide binding]; other site 1134782005397 anticodon binding site; other site 1134782005398 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1134782005399 dimer interface [polypeptide binding]; other site 1134782005400 putative tRNA-binding site [nucleotide binding]; other site 1134782005401 antiporter inner membrane protein; Provisional; Region: PRK11670 1134782005402 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1134782005403 Walker A motif; other site 1134782005404 Protein of unknown function (DUF2574); Region: DUF2574; pfam10836 1134782005405 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782005406 putative fimbrial assembly chaperone protein StcB; Provisional; Region: PRK15253 1134782005407 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782005408 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782005409 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 1134782005410 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782005411 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782005412 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782005413 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 1134782005414 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782005415 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782005416 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782005417 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782005418 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 1134782005419 Predicted integral membrane protein [Function unknown]; Region: COG5455 1134782005420 nickel/cobalt efflux protein RcnA; Provisional; Region: PRK10019 1134782005421 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1134782005422 putative metal binding site [ion binding]; other site 1134782005423 putative homodimer interface [polypeptide binding]; other site 1134782005424 putative homotetramer interface [polypeptide binding]; other site 1134782005425 putative homodimer-homodimer interface [polypeptide binding]; other site 1134782005426 putative allosteric switch controlling residues; other site 1134782005427 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1134782005428 substrate binding site [chemical binding]; other site 1134782005429 multimerization interface [polypeptide binding]; other site 1134782005430 ATP binding site [chemical binding]; other site 1134782005431 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1134782005432 dimer interface [polypeptide binding]; other site 1134782005433 substrate binding site [chemical binding]; other site 1134782005434 ATP binding site [chemical binding]; other site 1134782005435 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1134782005436 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 1134782005437 active site 1134782005438 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1134782005439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782005440 DNA-binding site [nucleotide binding]; DNA binding site 1134782005441 UTRA domain; Region: UTRA; pfam07702 1134782005442 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782005443 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1134782005444 substrate binding site [chemical binding]; other site 1134782005445 ATP binding site [chemical binding]; other site 1134782005446 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 1134782005447 nucleoside transporter; Region: 2A0110; TIGR00889 1134782005448 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005449 putative substrate translocation pore; other site 1134782005450 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 1134782005451 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1134782005452 putative active site; other site 1134782005453 catalytic residue [active] 1134782005454 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1134782005455 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1134782005456 intersubunit interface [polypeptide binding]; other site 1134782005457 active site 1134782005458 zinc binding site [ion binding]; other site 1134782005459 Na+ binding site [ion binding]; other site 1134782005460 potential frameshift: common BLAST hit: gi|291283341|ref|YP_003500159.1| tagatose 6-phosphate kinase 1134782005461 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782005462 active site 1134782005463 phosphorylation site [posttranslational modification] 1134782005464 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 1134782005465 active site 1134782005466 P-loop; other site 1134782005467 phosphorylation site [posttranslational modification] 1134782005468 Phosphotransferase system, galactitol-specific IIC component [Carbohydrate transport and metabolism]; Region: GatC; COG3775 1134782005469 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1134782005470 galactitol-1-phosphate dehydrogenase; Provisional; Region: PRK10309 1134782005471 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 1134782005472 putative NAD(P) binding site [chemical binding]; other site 1134782005473 catalytic Zn binding site [ion binding]; other site 1134782005474 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782005475 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1134782005476 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782005477 lipid kinase; Reviewed; Region: PRK13054 1134782005478 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1134782005479 putative protease; Provisional; Region: PRK15452 1134782005480 Peptidase family U32; Region: Peptidase_U32; pfam01136 1134782005481 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1134782005482 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1134782005483 Uncharacterized conserved protein [Function unknown]; Region: COG3422 1134782005484 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1134782005485 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1134782005486 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005487 active site 1134782005488 phosphorylation site [posttranslational modification] 1134782005489 intermolecular recognition site; other site 1134782005490 dimerization interface [polypeptide binding]; other site 1134782005491 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782005492 DNA binding site [nucleotide binding] 1134782005493 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1134782005494 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782005495 dimerization interface [polypeptide binding]; other site 1134782005496 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782005497 dimer interface [polypeptide binding]; other site 1134782005498 phosphorylation site [posttranslational modification] 1134782005499 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782005500 ATP binding site [chemical binding]; other site 1134782005501 Mg2+ binding site [ion binding]; other site 1134782005502 G-X-G motif; other site 1134782005503 putative transporter; Provisional; Region: PRK10504 1134782005504 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005505 putative substrate translocation pore; other site 1134782005506 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005507 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1134782005508 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1134782005509 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782005510 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1134782005511 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782005512 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782005513 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 1134782005514 metal ion-dependent adhesion site (MIDAS); other site 1134782005515 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1134782005516 Uncharacterized protein with protein kinase and helix-hairpin-helix DNA-binding domains [General function prediction only]; Region: COG4248 1134782005517 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1134782005518 substrate binding site [chemical binding]; other site 1134782005519 activation loop (A-loop); other site 1134782005520 Y-family of DNA polymerases; Region: PolY; cl12025 1134782005521 putative chaperone; Provisional; Region: PRK11678 1134782005522 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1134782005523 nucleotide binding site [chemical binding]; other site 1134782005524 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1134782005525 SBD interface [polypeptide binding]; other site 1134782005526 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 1134782005527 AlkA N-terminal domain; Region: AlkA_N; smart01009 1134782005528 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1134782005529 minor groove reading motif; other site 1134782005530 helix-hairpin-helix signature motif; other site 1134782005531 substrate binding pocket [chemical binding]; other site 1134782005532 active site 1134782005533 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 1134782005534 putative diguanylate cyclase; Provisional; Region: PRK09776 1134782005535 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782005536 putative active site [active] 1134782005537 heme pocket [chemical binding]; other site 1134782005538 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782005539 putative active site [active] 1134782005540 heme pocket [chemical binding]; other site 1134782005541 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782005542 putative active site [active] 1134782005543 heme pocket [chemical binding]; other site 1134782005544 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782005545 metal binding site [ion binding]; metal-binding site 1134782005546 active site 1134782005547 I-site; other site 1134782005548 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 1134782005549 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1134782005550 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1134782005551 ATP-binding site [chemical binding]; other site 1134782005552 Sugar specificity; other site 1134782005553 Pyrimidine base specificity; other site 1134782005554 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1134782005555 trimer interface [polypeptide binding]; other site 1134782005556 active site 1134782005557 putative assembly protein; Provisional; Region: PRK10833 1134782005558 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1134782005559 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1134782005560 FOG: CBS domain [General function prediction only]; Region: COG0517 1134782005561 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1134782005562 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782005563 polysaccharide export protein Wza; Provisional; Region: PRK15078 1134782005564 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1134782005565 SLBB domain; Region: SLBB; pfam10531 1134782005566 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1134782005567 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1134782005568 active site 1134782005569 tyrosine kinase; Provisional; Region: PRK11519 1134782005570 Chain length determinant protein; Region: Wzz; pfam02706 1134782005571 Chain length determinant protein; Region: Wzz; cl15801 1134782005572 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1134782005573 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1134782005574 putative glycosyl transferase; Provisional; Region: PRK10018 1134782005575 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1134782005576 active site 1134782005577 putative acyl transferase; Provisional; Region: PRK10191 1134782005578 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1134782005579 trimer interface [polypeptide binding]; other site 1134782005580 active site 1134782005581 substrate binding site [chemical binding]; other site 1134782005582 CoA binding site [chemical binding]; other site 1134782005583 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1134782005584 colanic acid biosynthesis glycosyl transferase WcaC; Region: WcaC; TIGR04015 1134782005585 putative colanic acid polymerase WcaD; Region: WcaD; TIGR04010 1134782005586 putative glycosyl transferase; Provisional; Region: PRK10063 1134782005587 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 1134782005588 metal-binding site 1134782005589 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 1134782005590 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1134782005591 putative trimer interface [polypeptide binding]; other site 1134782005592 putative active site [active] 1134782005593 putative substrate binding site [chemical binding]; other site 1134782005594 putative CoA binding site [chemical binding]; other site 1134782005595 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1134782005596 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1134782005597 NADP-binding site; other site 1134782005598 homotetramer interface [polypeptide binding]; other site 1134782005599 substrate binding site [chemical binding]; other site 1134782005600 homodimer interface [polypeptide binding]; other site 1134782005601 active site 1134782005602 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1134782005603 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1134782005604 NADP binding site [chemical binding]; other site 1134782005605 active site 1134782005606 putative substrate binding site [chemical binding]; other site 1134782005607 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 1134782005608 active site 1134782005609 GDP-Mannose binding site [chemical binding]; other site 1134782005610 dimer interface [polypeptide binding]; other site 1134782005611 modified nudix motif 1134782005612 metal binding site [ion binding]; metal-binding site 1134782005613 colanic acid biosynthesis glycosyl transferase WcaI; Region: wcaI; TIGR04007 1134782005614 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1134782005615 mannose-1-phosphate guanyltransferase; Provisional; Region: cpsB; PRK15460 1134782005616 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1134782005617 Substrate binding site; other site 1134782005618 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1134782005619 phosphomannomutase CpsG; Provisional; Region: PRK15414 1134782005620 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1134782005621 active site 1134782005622 substrate binding site [chemical binding]; other site 1134782005623 metal binding site [ion binding]; metal-binding site 1134782005624 putative UDP-glucose lipid carrier transferase; Provisional; Region: PRK10124 1134782005625 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1134782005626 colanic acid exporter; Provisional; Region: PRK10459 1134782005627 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1134782005628 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1134782005629 colanic acid biosynthesis pyruvyl transferase WcaK; Region: wcaK; TIGR04006 1134782005630 colanic acid biosynthesis glycosyltransferase WcaL; Region: wcaL; TIGR04005 1134782005631 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 1134782005632 putative ADP-binding pocket [chemical binding]; other site 1134782005633 putative colanic acid biosynthesis protein; Provisional; Region: wcaM; PRK10123 1134782005634 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1134782005635 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1134782005636 putative NAD(P) binding site [chemical binding]; other site 1134782005637 active site 1134782005638 putative substrate binding site [chemical binding]; other site 1134782005639 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1134782005640 active site 1134782005641 tetramer interface; other site 1134782005642 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1134782005643 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1134782005644 putative trimer interface [polypeptide binding]; other site 1134782005645 putative CoA binding site [chemical binding]; other site 1134782005646 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1134782005647 NeuB family; Region: NeuB; pfam03102 1134782005648 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1134782005649 NeuB binding interface [polypeptide binding]; other site 1134782005650 putative substrate binding site [chemical binding]; other site 1134782005651 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1134782005652 ligand binding site; other site 1134782005653 tetramer interface; other site 1134782005654 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1134782005655 active site 1134782005656 catalytic triad [active] 1134782005657 oxyanion hole [active] 1134782005658 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1134782005659 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1134782005660 active site 1134782005661 homodimer interface [polypeptide binding]; other site 1134782005662 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1134782005663 Predicted membrane protein [Function unknown]; Region: COG4485 1134782005664 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1134782005665 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1134782005666 putative ADP-binding pocket [chemical binding]; other site 1134782005667 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1134782005668 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1134782005669 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1134782005670 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1134782005671 active site 1134782005672 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1134782005673 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1134782005674 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1134782005675 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1134782005676 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1134782005677 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1134782005678 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1134782005679 chain length determinant protein WzzB; Provisional; Region: PRK15471 1134782005680 Chain length determinant protein; Region: Wzz; pfam02706 1134782005681 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1134782005682 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1134782005683 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1134782005684 metal binding site [ion binding]; metal-binding site 1134782005685 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1134782005686 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1134782005687 substrate binding site [chemical binding]; other site 1134782005688 glutamase interaction surface [polypeptide binding]; other site 1134782005689 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1134782005690 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1134782005691 catalytic residues [active] 1134782005692 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1134782005693 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1134782005694 putative active site [active] 1134782005695 oxyanion strand; other site 1134782005696 catalytic triad [active] 1134782005697 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1134782005698 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782005699 active site 1134782005700 motif I; other site 1134782005701 motif II; other site 1134782005702 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1134782005703 putative active site pocket [active] 1134782005704 4-fold oligomerization interface [polypeptide binding]; other site 1134782005705 metal binding residues [ion binding]; metal-binding site 1134782005706 3-fold/trimer interface [polypeptide binding]; other site 1134782005707 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1134782005708 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782005709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782005710 homodimer interface [polypeptide binding]; other site 1134782005711 catalytic residue [active] 1134782005712 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1134782005713 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1134782005714 NAD binding site [chemical binding]; other site 1134782005715 dimerization interface [polypeptide binding]; other site 1134782005716 product binding site; other site 1134782005717 substrate binding site [chemical binding]; other site 1134782005718 zinc binding site [ion binding]; other site 1134782005719 catalytic residues [active] 1134782005720 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1134782005721 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1134782005722 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1134782005723 antitoxin YefM; Provisional; Region: PRK11409 1134782005724 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 1134782005725 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1134782005726 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1134782005727 putative NAD(P) binding site [chemical binding]; other site 1134782005728 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782005729 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1134782005730 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782005731 dimerization interface [polypeptide binding]; other site 1134782005732 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1134782005733 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 1134782005734 Sulphur transport; Region: Sulf_transp; pfam04143 1134782005735 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1134782005736 CPxP motif; other site 1134782005737 exonuclease I; Provisional; Region: sbcB; PRK11779 1134782005738 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1134782005739 active site 1134782005740 catalytic site [active] 1134782005741 substrate binding site [chemical binding]; other site 1134782005742 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1134782005743 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 1134782005744 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1134782005745 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1134782005746 DNA gyrase inhibitor; Provisional; Region: PRK10016 1134782005747 Predicted membrane protein [Function unknown]; Region: COG1289 1134782005748 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782005749 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782005750 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782005751 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782005752 hypothetical protein; Provisional; Region: PRK05423 1134782005753 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782005754 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 1134782005755 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 1134782005756 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 1134782005757 Protein of unknown function (DUF987); Region: DUF987; pfam06174 1134782005758 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1134782005759 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782005760 MPN+ (JAMM) motif; other site 1134782005761 Zinc-binding site [ion binding]; other site 1134782005762 Antirestriction protein; Region: Antirestrict; pfam03230 1134782005763 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1134782005764 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1134782005765 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1134782005766 nucleophile elbow; other site 1134782005767 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1134782005768 YjcZ-like protein; Region: YjcZ; pfam13990 1134782005769 hypothetical protein; Provisional; Region: PRK09866 1134782005770 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782005771 G1 box; other site 1134782005772 GTP/Mg2+ binding site [chemical binding]; other site 1134782005773 G2 box; other site 1134782005774 Switch I region; other site 1134782005775 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782005776 G3 box; other site 1134782005777 Switch II region; other site 1134782005778 GTP/Mg2+ binding site [chemical binding]; other site 1134782005779 G4 box; other site 1134782005780 G5 box; other site 1134782005781 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782005782 Transposase; Region: HTH_Tnp_1; pfam01527 1134782005783 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782005784 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782005785 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 1134782005786 homodimer interface [polypeptide binding]; other site 1134782005787 putative GKAP docking site [polypeptide binding]; other site 1134782005788 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782005789 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782005790 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782005791 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782005792 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782005793 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1134782005794 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1134782005795 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1134782005796 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782005797 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782005798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1134782005799 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1134782005800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1134782005801 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1134782005802 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1134782005803 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 1134782005804 Phosphotriesterase (PTE) catalyzes the hydrolysis of organophosphate nerve agents, including the chemical warfare agents VX, soman, and sarin as well as the insecticide paraoxon. PTE exists as a homodimer with one active site per monomer. The active site...; Region: PTE; cd00530 1134782005805 active site 1134782005806 substrate binding pocket [chemical binding]; other site 1134782005807 homodimer interaction site [polypeptide binding]; other site 1134782005808 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1134782005809 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782005810 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1134782005811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782005812 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1134782005813 substrate binding site [chemical binding]; other site 1134782005814 dimer interface [polypeptide binding]; other site 1134782005815 ATP binding site [chemical binding]; other site 1134782005816 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782005817 Predicted GTPase [General function prediction only]; Region: COG3596 1134782005818 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1134782005819 homotrimer interface [polypeptide binding]; other site 1134782005820 Walker A motif; other site 1134782005821 GTP binding site [chemical binding]; other site 1134782005822 Walker B motif; other site 1134782005823 cobalamin 5'-phosphate synthase/cobalamin synthase; Region: cobS; TIGR00317 1134782005824 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1134782005825 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1134782005826 putative dimer interface [polypeptide binding]; other site 1134782005827 active site pocket [active] 1134782005828 putative cataytic base [active] 1134782005829 L,D-transpeptidase; Provisional; Region: PRK10190 1134782005830 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782005831 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 1134782005832 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782005833 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 1134782005834 putative dimerization interface [polypeptide binding]; other site 1134782005835 transcriptional regulator Cbl; Reviewed; Region: cbl; PRK12679 1134782005836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782005837 The C-terminal substrate binding domain of LysR-type transcriptional regulator Cbl, which is required for expression of sulfate starvation-inducible (ssi) genes, contains the type 2 periplasmic binding fold; Region: PBP2_Cbl; cd08444 1134782005838 putative substrate binding site [chemical binding]; other site 1134782005839 dimerization interface [polypeptide binding]; other site 1134782005840 MATE family multidrug exporter; Provisional; Region: PRK10189 1134782005841 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 1134782005842 hypothetical protein; Provisional; Region: PRK12378 1134782005843 AMP nucleosidase; Provisional; Region: PRK08292 1134782005844 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1134782005845 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1134782005846 shikimate transporter; Provisional; Region: PRK09952 1134782005847 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782005848 putative substrate translocation pore; other site 1134782005849 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1134782005850 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1134782005851 potential frameshift: common BLAST hit: gi|117624169|ref|YP_853082.1| autotransporter 1134782005852 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1134782005853 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1134782005854 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782005855 N-terminal plug; other site 1134782005856 ligand-binding site [chemical binding]; other site 1134782005857 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 1134782005858 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1134782005859 acyl-activating enzyme (AAE) consensus motif; other site 1134782005860 active site 1134782005861 AMP binding site [chemical binding]; other site 1134782005862 substrate binding site [chemical binding]; other site 1134782005863 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 1134782005864 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 1134782005865 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782005866 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 1134782005867 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 1134782005868 active site 1134782005869 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1134782005870 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 1134782005871 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1134782005872 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 1134782005873 KR domain; Region: KR; pfam08659 1134782005874 NADP binding site [chemical binding]; other site 1134782005875 active site 1134782005876 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782005877 Condensation domain; Region: Condensation; pfam00668 1134782005878 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1134782005879 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1134782005880 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1134782005881 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782005882 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1134782005883 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1134782005884 Condensation domain; Region: Condensation; pfam00668 1134782005885 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1134782005886 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1134782005887 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 1134782005888 acyl-activating enzyme (AAE) consensus motif; other site 1134782005889 AMP binding site [chemical binding]; other site 1134782005890 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1134782005891 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782005892 S-adenosylmethionine binding site [chemical binding]; other site 1134782005893 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1134782005894 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782005895 Condensation domain; Region: Condensation; pfam00668 1134782005896 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1134782005897 Nonribosomal peptide synthase; Region: NRPS; pfam08415 1134782005898 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782005899 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782005900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782005901 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782005902 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1134782005903 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782005904 Walker A/P-loop; other site 1134782005905 ATP binding site [chemical binding]; other site 1134782005906 Q-loop/lid; other site 1134782005907 ABC transporter signature motif; other site 1134782005908 Walker B; other site 1134782005909 D-loop; other site 1134782005910 H-loop/switch region; other site 1134782005911 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1134782005912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782005913 Walker A/P-loop; other site 1134782005914 ATP binding site [chemical binding]; other site 1134782005915 Q-loop/lid; other site 1134782005916 ABC transporter signature motif; other site 1134782005917 Walker B; other site 1134782005918 D-loop; other site 1134782005919 H-loop/switch region; other site 1134782005920 siderophore transporter, RhtX/FptX family; Region: sider_RhtX_FptX; TIGR02718 1134782005921 salicylate synthase Irp9; Reviewed; Region: PRK06772 1134782005922 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1134782005923 integrase; Provisional; Region: PRK09692 1134782005924 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782005925 active site 1134782005926 Int/Topo IB signature motif; other site 1134782005927 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 1134782005928 zinc/cadmium-binding protein; Provisional; Region: PRK10306 1134782005929 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1134782005930 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1134782005931 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1134782005932 Moco binding site; other site 1134782005933 metal coordination site [ion binding]; other site 1134782005934 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1134782005935 active site 1134782005936 homotetramer interface [polypeptide binding]; other site 1134782005937 transcriptional regulatory protein YedW; Provisional; Region: PRK11517 1134782005938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782005939 active site 1134782005940 phosphorylation site [posttranslational modification] 1134782005941 intermolecular recognition site; other site 1134782005942 dimerization interface [polypeptide binding]; other site 1134782005943 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782005944 DNA binding site [nucleotide binding] 1134782005945 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 1134782005946 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782005947 dimer interface [polypeptide binding]; other site 1134782005948 phosphorylation site [posttranslational modification] 1134782005949 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782005950 ATP binding site [chemical binding]; other site 1134782005951 Mg2+ binding site [ion binding]; other site 1134782005952 G-X-G motif; other site 1134782005953 chaperone protein HchA; Provisional; Region: PRK04155 1134782005954 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 1134782005955 dimer interface [polypeptide binding]; other site 1134782005956 metal binding site [ion binding]; metal-binding site 1134782005957 potential oxyanion hole; other site 1134782005958 potential catalytic triad [active] 1134782005959 conserved cys residue [active] 1134782005960 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782005961 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782005962 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782005963 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782005964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1134782005965 Integrase core domain; Region: rve; pfam00665 1134782005966 Integrase core domain; Region: rve_3; pfam13683 1134782005967 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1134782005968 Helix-turn-helix domain; Region: HTH_38; pfam13936 1134782005969 Integrase core domain; Region: rve; pfam00665 1134782005970 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782005971 Transposase; Region: HTH_Tnp_1; pfam01527 1134782005972 potential frameshift: common BLAST hit: gi|218558820|ref|YP_002391733.1| outer membrane protein F precursor (Porin ompF) 1134782005973 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1134782005974 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 1134782005975 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782005976 Zn2+ binding site [ion binding]; other site 1134782005977 Mg2+ binding site [ion binding]; other site 1134782005978 DNA cytosine methylase; Provisional; Region: PRK10458 1134782005979 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 1134782005980 cofactor binding site; other site 1134782005981 DNA binding site [nucleotide binding] 1134782005982 substrate interaction site [chemical binding]; other site 1134782005983 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1134782005984 additional DNA contacts [nucleotide binding]; other site 1134782005985 mismatch recognition site; other site 1134782005986 active site 1134782005987 zinc binding site [ion binding]; other site 1134782005988 DNA intercalation site [nucleotide binding]; other site 1134782005989 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 1134782005990 EamA-like transporter family; Region: EamA; pfam00892 1134782005991 hypothetical protein; Provisional; Region: PRK10062 1134782005992 Uncharacterized small protein [Function unknown]; Region: COG5475 1134782005993 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 1134782005994 putative diguanylate cyclase YedQ; Provisional; Region: PRK15426 1134782005995 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782005996 metal binding site [ion binding]; metal-binding site 1134782005997 active site 1134782005998 I-site; other site 1134782005999 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK03669 1134782006000 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782006001 active site 1134782006002 motif I; other site 1134782006003 motif II; other site 1134782006004 Protein of unknown function (DUF2525); Region: DUF2525; pfam10733 1134782006005 hypothetical protein; Provisional; Region: PRK10708 1134782006006 colanic acid capsular biosynthesis activation protein A; Provisional; Region: rcsA; PRK15411 1134782006007 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782006008 DNA binding residues [nucleotide binding] 1134782006009 dimerization interface [polypeptide binding]; other site 1134782006010 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1134782006011 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1134782006012 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1134782006013 flagellar biosynthesis protein FliO; Provisional; Region: PRK11486 1134782006014 flagellar motor switch protein FliN; Validated; Region: fliN; PRK07963 1134782006015 flagellar motor switch protein; Validated; Region: fliN; PRK05698 1134782006016 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1134782006017 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1134782006018 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1134782006019 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 1134782006020 flagellar hook-length control protein; Provisional; Region: PRK10118 1134782006021 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1134782006022 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1134782006023 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 1134782006024 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1134782006025 Walker A motif/ATP binding site; other site 1134782006026 Walker B motif; other site 1134782006027 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1134782006028 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1134782006029 Flagellar assembly protein FliH; Region: FliH; pfam02108 1134782006030 flagellar motor switch protein FliG; Region: fliG; TIGR00207 1134782006031 FliG C-terminal domain; Region: FliG_C; pfam01706 1134782006032 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 1134782006033 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1134782006034 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1134782006035 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1134782006036 multidrug efflux protein; Reviewed; Region: emrE; PRK09541 1134782006037 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1134782006038 substrate binding site [chemical binding]; other site 1134782006039 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782006040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 1134782006041 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 1134782006042 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 1134782006043 CPxP motif; other site 1134782006044 putative inner membrane protein; Provisional; Region: PRK11099 1134782006045 lipoprotein; Provisional; Region: PRK10397 1134782006046 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1134782006047 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 1134782006048 active site 1134782006049 Na/Ca binding site [ion binding]; other site 1134782006050 catalytic site [active] 1134782006051 flagellar biosynthesis protein FliT; Provisional; Region: PRK10548 1134782006052 Flagellar protein FliS; Region: FliS; cl00654 1134782006053 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1134782006054 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1134782006055 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1134782006056 flagellin; Validated; Region: PRK06819 1134782006057 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1134782006058 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1134782006059 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1134782006060 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782006061 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1134782006062 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782006063 DNA binding residues [nucleotide binding] 1134782006064 flagella biosynthesis protein FliZ; Provisional; Region: PRK11582 1134782006065 cystine transporter subunit; Provisional; Region: PRK11260 1134782006066 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782006067 substrate binding pocket [chemical binding]; other site 1134782006068 membrane-bound complex binding site; other site 1134782006069 hinge residues; other site 1134782006070 D-cysteine desulfhydrase; Validated; Region: PRK03910 1134782006071 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 1134782006072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782006073 catalytic residue [active] 1134782006074 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782006075 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782006076 dimer interface [polypeptide binding]; other site 1134782006077 conserved gate region; other site 1134782006078 putative PBP binding loops; other site 1134782006079 ABC-ATPase subunit interface; other site 1134782006080 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1134782006081 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1134782006082 Walker A/P-loop; other site 1134782006083 ATP binding site [chemical binding]; other site 1134782006084 Q-loop/lid; other site 1134782006085 ABC transporter signature motif; other site 1134782006086 Walker B; other site 1134782006087 D-loop; other site 1134782006088 H-loop/switch region; other site 1134782006089 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 1134782006090 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1134782006091 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782006092 DNA binding residues [nucleotide binding] 1134782006093 dimerization interface [polypeptide binding]; other site 1134782006094 hypothetical protein; Provisional; Region: PRK10613 1134782006095 response regulator; Provisional; Region: PRK09483 1134782006096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782006097 active site 1134782006098 phosphorylation site [posttranslational modification] 1134782006099 intermolecular recognition site; other site 1134782006100 dimerization interface [polypeptide binding]; other site 1134782006101 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782006102 DNA binding residues [nucleotide binding] 1134782006103 dimerization interface [polypeptide binding]; other site 1134782006104 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1134782006105 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1134782006106 GIY-YIG motif/motif A; other site 1134782006107 active site 1134782006108 catalytic site [active] 1134782006109 putative DNA binding site [nucleotide binding]; other site 1134782006110 metal binding site [ion binding]; metal-binding site 1134782006111 UvrB/uvrC motif; Region: UVR; pfam02151 1134782006112 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1134782006113 Helix-hairpin-helix motif; Region: HHH; pfam00633 1134782006114 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 1134782006115 hypothetical protein; Provisional; Region: PRK10396 1134782006116 yecA family protein; Region: ygfB_yecA; TIGR02292 1134782006117 SEC-C motif; Region: SEC-C; pfam02810 1134782006118 tyrosine transporter TyrP; Provisional; Region: PRK15132 1134782006119 aromatic amino acid transport protein; Region: araaP; TIGR00837 1134782006120 probable metal-binding protein; Region: matur_matur; TIGR03853 1134782006121 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1134782006122 Ferritin-like domain; Region: Ferritin; pfam00210 1134782006123 ferroxidase diiron center [ion binding]; other site 1134782006124 YecR-like lipoprotein; Region: YecR; pfam13992 1134782006125 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 1134782006126 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 1134782006127 Ferritin-like domain; Region: Ferritin; pfam00210 1134782006128 ferroxidase diiron center [ion binding]; other site 1134782006129 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 1134782006130 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 1134782006131 ligand binding site [chemical binding]; other site 1134782006132 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 1134782006133 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782006134 Walker A/P-loop; other site 1134782006135 ATP binding site [chemical binding]; other site 1134782006136 Q-loop/lid; other site 1134782006137 ABC transporter signature motif; other site 1134782006138 Walker B; other site 1134782006139 D-loop; other site 1134782006140 H-loop/switch region; other site 1134782006141 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782006142 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782006143 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782006144 TM-ABC transporter signature motif; other site 1134782006145 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187 1134782006146 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 1134782006147 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 1134782006148 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 1134782006149 active site 1134782006150 homotetramer interface [polypeptide binding]; other site 1134782006151 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782006152 Ligand Binding Site [chemical binding]; other site 1134782006153 transcriptional activator FlhD; Provisional; Region: PRK02909 1134782006154 transcriptional activator FlhC; Provisional; Region: PRK12722 1134782006155 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1134782006156 flagellar motor protein MotA; Validated; Region: PRK09110 1134782006157 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1134782006158 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1134782006159 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782006160 ligand binding site [chemical binding]; other site 1134782006161 chemotaxis protein CheA; Provisional; Region: PRK10547 1134782006162 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782006163 putative binding surface; other site 1134782006164 active site 1134782006165 CheY binding; Region: CheY-binding; pfam09078 1134782006166 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1134782006167 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782006168 ATP binding site [chemical binding]; other site 1134782006169 Mg2+ binding site [ion binding]; other site 1134782006170 G-X-G motif; other site 1134782006171 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1134782006172 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1134782006173 putative CheA interaction surface; other site 1134782006174 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1134782006175 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1134782006176 dimer interface [polypeptide binding]; other site 1134782006177 ligand binding site [chemical binding]; other site 1134782006178 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782006179 dimerization interface [polypeptide binding]; other site 1134782006180 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1134782006181 dimer interface [polypeptide binding]; other site 1134782006182 putative CheW interface [polypeptide binding]; other site 1134782006183 methyl-accepting protein IV; Provisional; Region: PRK09793 1134782006184 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1134782006185 dimer interface [polypeptide binding]; other site 1134782006186 ligand binding site [chemical binding]; other site 1134782006187 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782006188 dimerization interface [polypeptide binding]; other site 1134782006189 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1134782006190 dimer interface [polypeptide binding]; other site 1134782006191 putative CheW interface [polypeptide binding]; other site 1134782006192 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1134782006193 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1134782006194 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782006195 S-adenosylmethionine binding site [chemical binding]; other site 1134782006196 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1134782006197 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782006198 active site 1134782006199 phosphorylation site [posttranslational modification] 1134782006200 intermolecular recognition site; other site 1134782006201 dimerization interface [polypeptide binding]; other site 1134782006202 CheB methylesterase; Region: CheB_methylest; pfam01339 1134782006203 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1134782006204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782006205 active site 1134782006206 phosphorylation site [posttranslational modification] 1134782006207 intermolecular recognition site; other site 1134782006208 dimerization interface [polypeptide binding]; other site 1134782006209 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1134782006210 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1134782006211 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1134782006212 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1134782006213 FHIPEP family; Region: FHIPEP; pfam00771 1134782006214 Flagellar protein FlhE; Region: FlhE; pfam06366 1134782006215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 1134782006216 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1134782006217 arginyl-tRNA synthetase; Region: argS; TIGR00456 1134782006218 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1134782006219 active site 1134782006220 HIGH motif; other site 1134782006221 KMSK motif region; other site 1134782006222 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1134782006223 tRNA binding surface [nucleotide binding]; other site 1134782006224 anticodon binding site; other site 1134782006225 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1134782006226 putative metal binding site [ion binding]; other site 1134782006227 copper homeostasis protein CutC; Provisional; Region: PRK11572 1134782006228 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1134782006229 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1134782006230 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1134782006231 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1134782006232 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1134782006233 molybdopterin cofactor binding site [chemical binding]; other site 1134782006234 substrate binding site [chemical binding]; other site 1134782006235 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1134782006236 molybdopterin cofactor binding site; other site 1134782006237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782006238 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782006239 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782006240 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782006241 S-adenosylmethionine binding site [chemical binding]; other site 1134782006242 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782006243 S-adenosylmethionine binding site [chemical binding]; other site 1134782006244 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 1134782006245 hypothetical protein; Provisional; Region: PRK10302 1134782006246 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1134782006247 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1134782006248 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 1134782006249 Int/Topo IB signature motif; other site 1134782006250 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 1134782006251 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1134782006252 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1134782006253 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782006254 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1134782006255 Uncharacterized conserved protein [Function unknown]; Region: COG5532 1134782006256 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1134782006257 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782006258 non-specific DNA binding site [nucleotide binding]; other site 1134782006259 salt bridge; other site 1134782006260 sequence-specific DNA binding site [nucleotide binding]; other site 1134782006261 Predicted transcriptional regulator [Transcription]; Region: COG2932 1134782006262 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782006263 Catalytic site [active] 1134782006264 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782006265 non-specific DNA binding site [nucleotide binding]; other site 1134782006266 salt bridge; other site 1134782006267 sequence-specific DNA binding site [nucleotide binding]; other site 1134782006268 Ash protein family; Region: Phage_ASH; pfam10554 1134782006269 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1134782006270 Helix-turn-helix domain; Region: HTH_36; pfam13730 1134782006271 PerC transcriptional activator; Region: PerC; pfam06069 1134782006272 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 1134782006273 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1134782006274 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1134782006275 KilA-N domain; Region: KilA-N; pfam04383 1134782006276 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1134782006277 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1134782006278 putative recombination protein RecB; Provisional; Region: PRK13909 1134782006279 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1134782006280 MarR family; Region: MarR_2; cl17246 1134782006281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782006282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782006283 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 1134782006284 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782006285 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 1134782006286 Protein of unknown function (DUF826); Region: DUF826; pfam05696 1134782006287 Lysis protein S; Region: Lysis_S; pfam04971 1134782006288 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 1134782006289 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1134782006290 catalytic residues [active] 1134782006291 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1134782006292 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 1134782006293 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 1134782006294 potential frameshift: common BLAST hit: gi|291285786|ref|YP_003502604.1| DNA packaging protein of prophage 1134782006295 gpW; Region: gpW; pfam02831 1134782006296 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1134782006297 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1134782006298 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1134782006299 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1134782006300 tandem repeat interface [polypeptide binding]; other site 1134782006301 oligomer interface [polypeptide binding]; other site 1134782006302 active site residues [active] 1134782006303 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1134782006304 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1134782006305 DNA packaging protein FI; Region: Packaging_FI; pfam14000 1134782006306 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 1134782006307 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1134782006308 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1134782006309 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1134782006310 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1134782006311 phage minor tail protein G; Region: phage_lambda_G; TIGR01674 1134782006312 Minor tail protein T; Region: Phage_tail_T; pfam06223 1134782006313 Phage-related minor tail protein [Function unknown]; Region: COG5281 1134782006314 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1134782006315 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1134782006316 Phage-related protein [Function unknown]; Region: COG4718 1134782006317 Phage-related protein [Function unknown]; Region: gp18; COG4672 1134782006318 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1134782006319 MPN+ (JAMM) motif; other site 1134782006320 Zinc-binding site [ion binding]; other site 1134782006321 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782006322 NlpC/P60 family; Region: NLPC_P60; cl17555 1134782006323 Phage-related protein, tail component [Function unknown]; Region: COG4723 1134782006324 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782006325 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1134782006326 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1134782006327 Interdomain contacts; other site 1134782006328 Cytokine receptor motif; other site 1134782006329 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782006330 Fibronectin type III protein; Region: DUF3672; pfam12421 1134782006331 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 1134782006332 Phage Tail Collar Domain; Region: Collar; pfam07484 1134782006333 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1134782006334 DinI-like family; Region: DinI; pfam06183 1134782006335 Isochorismatase family; Region: Isochorismatase; pfam00857 1134782006336 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1134782006337 catalytic triad [active] 1134782006338 conserved cis-peptide bond; other site 1134782006339 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1134782006340 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1134782006341 dimer interface [polypeptide binding]; other site 1134782006342 anticodon binding site; other site 1134782006343 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1134782006344 homodimer interface [polypeptide binding]; other site 1134782006345 motif 1; other site 1134782006346 active site 1134782006347 motif 2; other site 1134782006348 GAD domain; Region: GAD; pfam02938 1134782006349 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1134782006350 motif 3; other site 1134782006351 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1134782006352 nudix motif; other site 1134782006353 hypothetical protein; Validated; Region: PRK00110 1134782006354 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1134782006355 active site 1134782006356 putative DNA-binding cleft [nucleotide binding]; other site 1134782006357 dimer interface [polypeptide binding]; other site 1134782006358 hypothetical protein; Provisional; Region: PRK11470 1134782006359 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1134782006360 RuvA N terminal domain; Region: RuvA_N; pfam01330 1134782006361 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1134782006362 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1134782006363 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782006364 Walker A motif; other site 1134782006365 ATP binding site [chemical binding]; other site 1134782006366 Walker B motif; other site 1134782006367 arginine finger; other site 1134782006368 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1134782006369 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1134782006370 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782006371 ABC-ATPase subunit interface; other site 1134782006372 dimer interface [polypeptide binding]; other site 1134782006373 putative PBP binding regions; other site 1134782006374 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1134782006375 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1134782006376 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1134782006377 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1134782006378 metal binding site [ion binding]; metal-binding site 1134782006379 putative peptidase; Provisional; Region: PRK11649 1134782006380 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1134782006381 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782006382 Peptidase family M23; Region: Peptidase_M23; pfam01551 1134782006383 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1134782006384 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1134782006385 putative acyl-acceptor binding pocket; other site 1134782006386 pyruvate kinase; Provisional; Region: PRK05826 1134782006387 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1134782006388 domain interfaces; other site 1134782006389 active site 1134782006390 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1134782006391 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1134782006392 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1134782006393 putative active site [active] 1134782006394 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1134782006395 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1134782006396 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1134782006397 phosphogluconate dehydratase; Validated; Region: PRK09054 1134782006398 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1134782006399 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1134782006400 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1134782006401 active site 1134782006402 intersubunit interface [polypeptide binding]; other site 1134782006403 catalytic residue [active] 1134782006404 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1134782006405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1134782006406 ATP-grasp domain; Region: ATP-grasp; pfam02222 1134782006407 DNA damage-inducible protein YebG; Provisional; Region: PRK10061 1134782006408 hypothetical protein; Provisional; Region: PRK13680 1134782006409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1134782006410 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1134782006411 putative metal binding site [ion binding]; other site 1134782006412 protease 2; Provisional; Region: PRK10115 1134782006413 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1134782006414 exodeoxyribonuclease X; Provisional; Region: PRK07983 1134782006415 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1134782006416 active site 1134782006417 catalytic site [active] 1134782006418 substrate binding site [chemical binding]; other site 1134782006419 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1134782006420 Carbon-nitrogen hydrolase; Region: CN_hydrolase; pfam00795 1134782006421 DNA polymerase III subunit theta; Reviewed; Region: PRK10969 1134782006422 hypothetical protein; Provisional; Region: PRK10301 1134782006423 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 1134782006424 Protein of unknown function (DUF2511); Region: DUF2511; pfam10709 1134782006425 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 1134782006426 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1134782006427 active site 1134782006428 metal binding site [ion binding]; metal-binding site 1134782006429 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 1134782006430 Protein of unknown function (DUF1480); Region: DUF1480; pfam07351 1134782006431 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 1134782006432 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782006433 S-adenosylmethionine binding site [chemical binding]; other site 1134782006434 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 1134782006435 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1134782006436 mce related protein; Region: MCE; pfam02470 1134782006437 mce related protein; Region: MCE; pfam02470 1134782006438 mce related protein; Region: MCE; pfam02470 1134782006439 mce related protein; Region: MCE; pfam02470 1134782006440 mce related protein; Region: MCE; pfam02470 1134782006441 integral membrane protein, PqiA family; Region: pqiA_fam; TIGR00155 1134782006442 Paraquat-inducible protein A; Region: PqiA; pfam04403 1134782006443 Paraquat-inducible protein A; Region: PqiA; pfam04403 1134782006444 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1134782006445 GAF domain; Region: GAF_2; pfam13185 1134782006446 ProP expression regulator; Provisional; Region: PRK04950 1134782006447 ProQ/FINO family; Region: ProQ; pfam04352 1134782006448 carboxy-terminal protease; Provisional; Region: PRK11186 1134782006449 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1134782006450 protein binding site [polypeptide binding]; other site 1134782006451 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1134782006452 Catalytic dyad [active] 1134782006453 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1134782006454 heat shock protein HtpX; Provisional; Region: PRK05457 1134782006455 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006456 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782006457 putative substrate translocation pore; other site 1134782006458 Predicted integral membrane protein [Function unknown]; Region: COG5521 1134782006459 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1134782006460 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782006461 dimerization interface [polypeptide binding]; other site 1134782006462 putative Zn2+ binding site [ion binding]; other site 1134782006463 putative DNA binding site [nucleotide binding]; other site 1134782006464 Bacterial transcriptional regulator; Region: IclR; pfam01614 1134782006465 YobH-like protein; Region: YobH; pfam13996 1134782006466 PhoPQ regulatory protein; Provisional; Region: PRK10299 1134782006467 YebO-like protein; Region: YebO; pfam13974 1134782006468 Protein of unknown function (DUF2627); Region: DUF2527; pfam10736 1134782006469 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782006470 DNA-binding site [nucleotide binding]; DNA binding site 1134782006471 RNA-binding motif; other site 1134782006472 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1134782006473 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782006474 S-adenosylmethionine binding site [chemical binding]; other site 1134782006475 hypothetical protein; Provisional; Region: PRK11469 1134782006476 Domain of unknown function DUF; Region: DUF204; pfam02659 1134782006477 Domain of unknown function DUF; Region: DUF204; pfam02659 1134782006478 Predicted membrane protein [Function unknown]; Region: COG4811 1134782006479 PTS system mannose-specific transporter subunit IID; Provisional; Region: PRK11103 1134782006480 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1134782006481 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1134782006482 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1134782006483 active pocket/dimerization site; other site 1134782006484 active site 1134782006485 phosphorylation site [posttranslational modification] 1134782006486 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1134782006487 active site 1134782006488 phosphorylation site [posttranslational modification] 1134782006489 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1134782006490 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1134782006491 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1134782006492 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782006493 phage resistance protein; Provisional; Region: PRK10551 1134782006494 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1134782006495 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782006496 L-serine deaminase; Provisional; Region: PRK15023 1134782006497 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1134782006498 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1134782006499 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1134782006500 putative active site [active] 1134782006501 putative CoA binding site [chemical binding]; other site 1134782006502 nudix motif; other site 1134782006503 metal binding site [ion binding]; metal-binding site 1134782006504 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 1134782006505 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1134782006506 aminodeoxychorismate synthase, component I, bacterial clade; Region: pabB; TIGR00553 1134782006507 hypothetical protein; Provisional; Region: PRK05114 1134782006508 Domain of unknown function (DUF1889); Region: DUF1889; pfam08986 1134782006509 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1134782006510 homotrimer interaction site [polypeptide binding]; other site 1134782006511 putative active site [active] 1134782006512 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1134782006513 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1134782006514 DEAD_2; Region: DEAD_2; pfam06733 1134782006515 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1134782006516 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1134782006517 Glycoprotease family; Region: Peptidase_M22; pfam00814 1134782006518 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1134782006519 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1134782006520 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1134782006521 acyl-activating enzyme (AAE) consensus motif; other site 1134782006522 putative AMP binding site [chemical binding]; other site 1134782006523 putative active site [active] 1134782006524 putative CoA binding site [chemical binding]; other site 1134782006525 ribonuclease D; Provisional; Region: PRK10829 1134782006526 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1134782006527 catalytic site [active] 1134782006528 putative active site [active] 1134782006529 putative substrate binding site [chemical binding]; other site 1134782006530 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1134782006531 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1134782006532 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 1134782006533 FMN-binding pocket [chemical binding]; other site 1134782006534 flavin binding motif; other site 1134782006535 phosphate binding motif [ion binding]; other site 1134782006536 beta-alpha-beta structure motif; other site 1134782006537 NAD binding pocket [chemical binding]; other site 1134782006538 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782006539 catalytic loop [active] 1134782006540 iron binding site [ion binding]; other site 1134782006541 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1134782006542 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 1134782006543 [2Fe-2S] cluster binding site [ion binding]; other site 1134782006544 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 1134782006545 putative alpha subunit interface [polypeptide binding]; other site 1134782006546 putative active site [active] 1134782006547 putative substrate binding site [chemical binding]; other site 1134782006548 Fe binding site [ion binding]; other site 1134782006549 putative transporter; Provisional; Region: PRK09950 1134782006550 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 1134782006551 tartrate dehydrogenase; Region: TTC; TIGR02089 1134782006552 transcriptional activator TtdR; Provisional; Region: PRK09801 1134782006553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782006554 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 1134782006555 putative effector binding pocket; other site 1134782006556 putative dimerization interface [polypeptide binding]; other site 1134782006557 leucine export protein LeuE; Provisional; Region: PRK10958 1134782006558 Uncharacterized protein/domain, possibly involved in tellurite resistance [Inorganic ion transport and metabolism]; Region: TehB; COG3615 1134782006559 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 1134782006560 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1134782006561 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1134782006562 Probable transposase; Region: OrfB_IS605; pfam01385 1134782006563 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1134782006564 hypothetical protein; Provisional; Region: PRK10457 1134782006565 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1134782006566 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1134782006567 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782006568 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782006569 metal binding site [ion binding]; metal-binding site 1134782006570 active site 1134782006571 I-site; other site 1134782006572 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1134782006573 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1134782006574 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1134782006575 cyanate transporter; Region: CynX; TIGR00896 1134782006576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006577 putative substrate translocation pore; other site 1134782006578 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782006579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782006580 Predicted membrane protein [Function unknown]; Region: COG2707 1134782006581 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1134782006582 putative deacylase active site [active] 1134782006583 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782006584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782006585 metal binding site [ion binding]; metal-binding site 1134782006586 active site 1134782006587 I-site; other site 1134782006588 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782006589 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782006590 metal binding site [ion binding]; metal-binding site 1134782006591 active site 1134782006592 I-site; other site 1134782006593 hypothetical protein; Provisional; Region: PRK05325 1134782006594 PrkA family serine protein kinase; Provisional; Region: PRK15455 1134782006595 AAA ATPase domain; Region: AAA_16; pfam13191 1134782006596 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1134782006597 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1134782006598 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782006599 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782006600 active site 1134782006601 catalytic tetrad [active] 1134782006602 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1134782006603 active site 1134782006604 phosphate binding residues; other site 1134782006605 catalytic residues [active] 1134782006606 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1134782006607 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1134782006608 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1134782006609 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1134782006610 SelR domain; Region: SelR; pfam01641 1134782006611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3139 1134782006612 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782006613 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 1134782006614 putative NAD(P) binding site [chemical binding]; other site 1134782006615 catalytic Zn binding site [ion binding]; other site 1134782006616 structural Zn binding site [ion binding]; other site 1134782006617 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006619 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782006620 Sorbitol dehydrogenase; Region: sorbitol_DH; cd05285 1134782006621 inhibitor binding site; inhibition site 1134782006622 catalytic Zn binding site [ion binding]; other site 1134782006623 structural Zn binding site [ion binding]; other site 1134782006624 NADP binding site [chemical binding]; other site 1134782006625 tetramer interface [polypeptide binding]; other site 1134782006626 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1134782006627 intersubunit interface [polypeptide binding]; other site 1134782006628 active site 1134782006629 zinc binding site [ion binding]; other site 1134782006630 Na+ binding site [ion binding]; other site 1134782006631 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782006632 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1134782006633 substrate binding site [chemical binding]; other site 1134782006634 ATP binding site [chemical binding]; other site 1134782006635 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782006636 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782006637 active site 1134782006638 catalytic tetrad [active] 1134782006639 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782006640 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1134782006641 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782006642 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1134782006643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006644 putative substrate translocation pore; other site 1134782006645 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006646 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1134782006647 Isochorismatase family; Region: Isochorismatase; pfam00857 1134782006648 catalytic triad [active] 1134782006649 metal binding site [ion binding]; metal-binding site 1134782006650 conserved cis-peptide bond; other site 1134782006651 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1134782006652 active site 1134782006653 homodimer interface [polypeptide binding]; other site 1134782006654 protease 4; Provisional; Region: PRK10949 1134782006655 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1134782006656 tandem repeat interface [polypeptide binding]; other site 1134782006657 oligomer interface [polypeptide binding]; other site 1134782006658 active site residues [active] 1134782006659 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_1; cd07019 1134782006660 tandem repeat interface [polypeptide binding]; other site 1134782006661 oligomer interface [polypeptide binding]; other site 1134782006662 active site residues [active] 1134782006663 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1134782006664 putative FMN binding site [chemical binding]; other site 1134782006665 selenophosphate synthetase; Provisional; Region: PRK00943 1134782006666 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1134782006667 dimerization interface [polypeptide binding]; other site 1134782006668 putative ATP binding site [chemical binding]; other site 1134782006669 DNA topoisomerase III; Provisional; Region: PRK07726 1134782006670 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1134782006671 active site 1134782006672 putative interdomain interaction site [polypeptide binding]; other site 1134782006673 putative metal-binding site [ion binding]; other site 1134782006674 putative nucleotide binding site [chemical binding]; other site 1134782006675 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1134782006676 domain I; other site 1134782006677 DNA binding groove [nucleotide binding] 1134782006678 phosphate binding site [ion binding]; other site 1134782006679 domain II; other site 1134782006680 domain III; other site 1134782006681 nucleotide binding site [chemical binding]; other site 1134782006682 catalytic site [active] 1134782006683 domain IV; other site 1134782006684 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 1134782006685 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782006686 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782006687 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782006688 Protein of unknown function (DUF1266); Region: DUF1266; cl14673 1134782006689 glutamate dehydrogenase; Provisional; Region: PRK09414 1134782006690 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1134782006691 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1134782006692 NAD(P) binding site [chemical binding]; other site 1134782006693 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 1134782006694 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1134782006695 active site 1134782006696 8-oxo-dGMP binding site [chemical binding]; other site 1134782006697 nudix motif; other site 1134782006698 metal binding site [ion binding]; metal-binding site 1134782006699 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1134782006700 Rhodanese Homology Domain; Region: RHOD; smart00450 1134782006701 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1134782006702 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1134782006703 active site residue [active] 1134782006704 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1134782006705 active site residue [active] 1134782006706 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1134782006707 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782006708 Walker A/P-loop; other site 1134782006709 ATP binding site [chemical binding]; other site 1134782006710 Q-loop/lid; other site 1134782006711 ABC transporter signature motif; other site 1134782006712 Walker B; other site 1134782006713 D-loop; other site 1134782006714 H-loop/switch region; other site 1134782006715 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1134782006716 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782006717 ABC-ATPase subunit interface; other site 1134782006718 putative PBP binding loops; other site 1134782006719 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1134782006720 hypothetical protein; Provisional; Region: PRK11622 1134782006721 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1134782006722 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1134782006723 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1134782006724 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1134782006725 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1134782006726 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1134782006727 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1134782006728 putative catalytic site [active] 1134782006729 putative phosphate binding site [ion binding]; other site 1134782006730 active site 1134782006731 metal binding site A [ion binding]; metal-binding site 1134782006732 DNA binding site [nucleotide binding] 1134782006733 putative AP binding site [nucleotide binding]; other site 1134782006734 putative metal binding site B [ion binding]; other site 1134782006735 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional; Region: PRK12381 1134782006736 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782006737 inhibitor-cofactor binding pocket; inhibition site 1134782006738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782006739 catalytic residue [active] 1134782006740 arginine succinyltransferase; Provisional; Region: PRK10456 1134782006741 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1134782006742 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 1134782006743 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1134782006744 NAD(P) binding site [chemical binding]; other site 1134782006745 catalytic residues [active] 1134782006746 succinylarginine dihydrolase; Provisional; Region: PRK13281 1134782006747 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1134782006748 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1134782006749 putative active site [active] 1134782006750 Zn binding site [ion binding]; other site 1134782006751 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1134782006752 dimer interface [polypeptide binding]; other site 1134782006753 hypothetical protein; Provisional; Region: PRK11396 1134782006754 nucleotide excision repair endonuclease; Provisional; Region: PRK10545 1134782006755 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1134782006756 GIY-YIG motif/motif A; other site 1134782006757 active site 1134782006758 catalytic site [active] 1134782006759 putative DNA binding site [nucleotide binding]; other site 1134782006760 metal binding site [ion binding]; metal-binding site 1134782006761 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782006762 NAD+ synthetase; Region: nadE; TIGR00552 1134782006763 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1134782006764 homodimer interface [polypeptide binding]; other site 1134782006765 NAD binding pocket [chemical binding]; other site 1134782006766 ATP binding pocket [chemical binding]; other site 1134782006767 Mg binding site [ion binding]; other site 1134782006768 active-site loop [active] 1134782006769 DNA-binding transcriptional activator OsmE; Provisional; Region: PRK11251 1134782006770 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1134782006771 active site 1134782006772 P-loop; other site 1134782006773 phosphorylation site [posttranslational modification] 1134782006774 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC; Provisional; Region: PRK10297 1134782006775 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1134782006776 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1134782006777 methionine cluster; other site 1134782006778 active site 1134782006779 phosphorylation site [posttranslational modification] 1134782006780 metal binding site [ion binding]; metal-binding site 1134782006781 DNA-binding transcriptional regulator ChbR; Provisional; Region: PRK10296 1134782006782 Cupin domain; Region: Cupin_2; pfam07883 1134782006783 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782006784 Alpha-galactosidases/6-phospho-beta-glucosidases, family 4 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: CelF; COG1486 1134782006785 Glycoside Hydrolases Family 4; Phospho-beta-glucosidase; Region: GH4_P_beta_glucosidase; cd05296 1134782006786 NAD binding site [chemical binding]; other site 1134782006787 sugar binding site [chemical binding]; other site 1134782006788 divalent metal binding site [ion binding]; other site 1134782006789 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1134782006790 dimer interface [polypeptide binding]; other site 1134782006791 Enterococcus faecalis EF3048 and similar proteins; Region: YdjC_EF3048_like; cd10803 1134782006792 putative active site [active] 1134782006793 YdjC motif; other site 1134782006794 Mg binding site [ion binding]; other site 1134782006795 putative homodimer interface [polypeptide binding]; other site 1134782006796 hydroperoxidase II; Provisional; Region: katE; PRK11249 1134782006797 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 1134782006798 tetramer interface [polypeptide binding]; other site 1134782006799 heme binding pocket [chemical binding]; other site 1134782006800 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 1134782006801 domain interactions; other site 1134782006802 cell division modulator; Provisional; Region: PRK10113 1134782006803 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1134782006804 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1134782006805 inner membrane protein; Provisional; Region: PRK11648 1134782006806 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1134782006807 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1134782006808 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782006809 motif II; other site 1134782006810 YniB-like protein; Region: YniB; pfam14002 1134782006811 Phosphotransferase enzyme family; Region: APH; pfam01636 1134782006812 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1134782006813 active site 1134782006814 ATP binding site [chemical binding]; other site 1134782006815 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1134782006816 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1134782006817 6-phosphofructokinase 2; Provisional; Region: PRK10294 1134782006818 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1134782006819 putative substrate binding site [chemical binding]; other site 1134782006820 putative ATP binding site [chemical binding]; other site 1134782006821 Putative salt-induced outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG3137 1134782006822 potential frameshift: common BLAST hit: gi|218705219|ref|YP_002412738.1| putative ankyrin repeat regulatory protein 1134782006823 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1134782006824 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1134782006825 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1134782006826 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1134782006827 active site 1134782006828 dimer interface [polypeptide binding]; other site 1134782006829 motif 1; other site 1134782006830 motif 2; other site 1134782006831 motif 3; other site 1134782006832 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1134782006833 anticodon binding site; other site 1134782006834 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1134782006835 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1134782006836 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1134782006837 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1134782006838 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1134782006839 23S rRNA binding site [nucleotide binding]; other site 1134782006840 L21 binding site [polypeptide binding]; other site 1134782006841 L13 binding site [polypeptide binding]; other site 1134782006842 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1134782006843 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1134782006844 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1134782006845 dimer interface [polypeptide binding]; other site 1134782006846 motif 1; other site 1134782006847 active site 1134782006848 motif 2; other site 1134782006849 motif 3; other site 1134782006850 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1134782006851 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1134782006852 putative tRNA-binding site [nucleotide binding]; other site 1134782006853 B3/4 domain; Region: B3_4; pfam03483 1134782006854 tRNA synthetase B5 domain; Region: B5; smart00874 1134782006855 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1134782006856 dimer interface [polypeptide binding]; other site 1134782006857 motif 1; other site 1134782006858 motif 3; other site 1134782006859 motif 2; other site 1134782006860 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1134782006861 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1134782006862 IHF dimer interface [polypeptide binding]; other site 1134782006863 IHF - DNA interface [nucleotide binding]; other site 1134782006864 Hok/gef family; Region: HOK_GEF; pfam01848 1134782006865 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 1134782006866 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1134782006867 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1134782006868 tail protein; Provisional; Region: D; PHA02561 1134782006869 Phage tail sheath protein FI [General function prediction only]; Region: COG3497 1134782006870 Phage tail tube protein FII; Region: Phage_tube; cl01390 1134782006871 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1134782006872 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1134782006873 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1134782006874 Phage protein U [General function prediction only]; Region: COG3499 1134782006875 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1134782006876 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1134782006877 trimer interface [polypeptide binding]; other site 1134782006878 active site 1134782006879 substrate binding site [chemical binding]; other site 1134782006880 CoA binding site [chemical binding]; other site 1134782006881 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1134782006882 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1134782006883 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782006884 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782006885 Phage Tail Collar Domain; Region: Collar; pfam07484 1134782006886 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1134782006887 Baseplate J-like protein; Region: Baseplate_J; cl01294 1134782006888 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1134782006889 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1134782006890 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1134782006891 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 1134782006892 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1134782006893 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 1134782006894 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782006895 Protein of unknown function (DUF2570); Region: DUF2570; pfam10828 1134782006896 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1134782006897 Phage holin family (Lysis protein S); Region: Phage_holin_3; cl04938 1134782006898 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1134782006899 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1134782006900 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1134782006901 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1134782006902 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1134782006903 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1134782006904 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1134782006905 terminase ATPase subunit; Provisional; Region: P; PHA02535 1134782006906 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1134782006907 Phage portal protein; Region: Phage_portal; pfam04860 1134782006908 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 1134782006909 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1134782006910 Mg binding site [ion binding]; other site 1134782006911 nucleotide binding site [chemical binding]; other site 1134782006912 putative protofilament interface [polypeptide binding]; other site 1134782006913 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1134782006914 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1134782006915 MarR family; Region: MarR_2; pfam12802 1134782006916 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782006917 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1134782006918 non-specific DNA binding site [nucleotide binding]; other site 1134782006919 salt bridge; other site 1134782006920 sequence-specific DNA binding site [nucleotide binding]; other site 1134782006921 integrase; Provisional; Region: int; PHA02601 1134782006922 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1134782006923 active site 1134782006924 DNA binding site [nucleotide binding] 1134782006925 Int/Topo IB signature motif; other site 1134782006926 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1134782006927 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782006928 ABC-ATPase subunit interface; other site 1134782006929 dimer interface [polypeptide binding]; other site 1134782006930 putative PBP binding regions; other site 1134782006931 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1134782006932 catalytic residues [active] 1134782006933 dimer interface [polypeptide binding]; other site 1134782006934 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1134782006935 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1134782006936 Walker A/P-loop; other site 1134782006937 ATP binding site [chemical binding]; other site 1134782006938 Q-loop/lid; other site 1134782006939 ABC transporter signature motif; other site 1134782006940 Walker B; other site 1134782006941 D-loop; other site 1134782006942 H-loop/switch region; other site 1134782006943 NlpC/P60 family; Region: NLPC_P60; pfam00877 1134782006944 c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]; Region: Rtn; COG2200 1134782006945 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1134782006946 hypothetical protein; Validated; Region: PRK00029 1134782006947 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 1134782006948 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 1134782006949 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1134782006950 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1134782006951 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1134782006952 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1134782006953 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782006954 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1134782006955 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 1134782006956 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 1134782006957 acyl-activating enzyme (AAE) consensus motif; other site 1134782006958 putative AMP binding site [chemical binding]; other site 1134782006959 putative active site [active] 1134782006960 putative CoA binding site [chemical binding]; other site 1134782006961 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 1134782006962 oxidoreductase; Provisional; Region: PRK10015 1134782006963 electron transfer flavoprotein subunit YdiR; Provisional; Region: PRK11916 1134782006964 Electron transfer flavoprotein domain; Region: ETF; smart00893 1134782006965 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1134782006966 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1134782006967 Ligand binding site [chemical binding]; other site 1134782006968 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1134782006969 Cupin domain; Region: Cupin_2; pfam07883 1134782006970 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782006971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782006972 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 1134782006973 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1134782006974 active site 1134782006975 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1134782006976 Coenzyme A transferase; Region: CoA_trans; smart00882 1134782006977 Coenzyme A transferase; Region: CoA_trans; cl17247 1134782006978 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 1134782006979 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1134782006980 active site 1134782006981 catalytic residue [active] 1134782006982 dimer interface [polypeptide binding]; other site 1134782006983 quinate/shikimate dehydrogenase; Reviewed; Region: PRK12749 1134782006984 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1134782006985 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1134782006986 shikimate binding site; other site 1134782006987 NAD(P) binding site [chemical binding]; other site 1134782006988 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006989 putative substrate translocation pore; other site 1134782006990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782006991 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782006992 putative substrate translocation pore; other site 1134782006993 Domain of unknown function (DUF1870); Region: DUF1870; pfam08965 1134782006994 putative inner membrane protein; Provisional; Region: PRK10983 1134782006995 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1134782006996 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1134782006997 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782006998 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1134782006999 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1134782007000 CoenzymeA binding site [chemical binding]; other site 1134782007001 subunit interaction site [polypeptide binding]; other site 1134782007002 PHB binding site; other site 1134782007003 iron-sulfur cluster assembly scaffold protein; Provisional; Region: sufA; PRK09504 1134782007004 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1134782007005 putative ABC transporter; Region: ycf24; CHL00085 1134782007006 cysteine desulfurase ATPase component; Reviewed; Region: sufC; PRK09580 1134782007007 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1134782007008 Walker A/P-loop; other site 1134782007009 ATP binding site [chemical binding]; other site 1134782007010 Q-loop/lid; other site 1134782007011 ABC transporter signature motif; other site 1134782007012 Walker B; other site 1134782007013 D-loop; other site 1134782007014 H-loop/switch region; other site 1134782007015 cysteine desulfurase activator complex subunit SufD; Provisional; Region: PRK10948 1134782007016 FeS assembly protein SufD; Region: sufD; TIGR01981 1134782007017 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1134782007018 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1134782007019 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782007020 catalytic residue [active] 1134782007021 cysteine desufuration protein SufE; Provisional; Region: PRK09296 1134782007022 L,D-transpeptidase; Provisional; Region: PRK10190 1134782007023 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782007024 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782007025 murein lipoprotein; Provisional; Region: PRK15396 1134782007026 pyruvate kinase; Provisional; Region: PRK09206 1134782007027 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 1134782007028 domain interfaces; other site 1134782007029 active site 1134782007030 hypothetical protein; Provisional; Region: PRK10292 1134782007031 hypothetical protein; Provisional; Region: PRK09898 1134782007032 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782007033 putative oxidoreductase; Provisional; Region: PRK09849 1134782007034 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 1134782007035 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 1134782007036 hypothetical protein; Provisional; Region: PRK09947 1134782007037 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1134782007038 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 1134782007039 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1134782007040 hypothetical protein; Provisional; Region: PRK09946 1134782007041 hypothetical protein; Provisional; Region: PRK09897 1134782007042 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1134782007043 putative monooxygenase; Provisional; Region: PRK11118 1134782007044 hypothetical protein; Provisional; Region: PRK09945 1134782007045 Type V secretory pathway, adhesin AidA [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: AidA; COG3468 1134782007046 multidrug efflux protein; Reviewed; Region: PRK01766 1134782007047 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1134782007048 cation binding site [ion binding]; other site 1134782007049 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1134782007050 Lumazine binding domain; Region: Lum_binding; pfam00677 1134782007051 Lumazine binding domain; Region: Lum_binding; pfam00677 1134782007052 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1134782007053 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1134782007054 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782007055 S-adenosylmethionine binding site [chemical binding]; other site 1134782007056 putative transporter; Provisional; Region: PRK11043 1134782007057 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007058 putative substrate translocation pore; other site 1134782007059 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1134782007060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782007061 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782007062 dimerization interface [polypeptide binding]; other site 1134782007063 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1134782007064 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782007065 DNA binding site [nucleotide binding] 1134782007066 domain linker motif; other site 1134782007067 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1134782007068 dimerization interface [polypeptide binding]; other site 1134782007069 ligand binding site [chemical binding]; other site 1134782007070 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007071 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782007072 putative substrate translocation pore; other site 1134782007073 superoxide dismutase; Provisional; Region: PRK10543 1134782007074 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1134782007075 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1134782007076 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782007077 NlpC/P60 family; Region: NLPC_P60; pfam00877 1134782007078 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1134782007079 putative GSH binding site [chemical binding]; other site 1134782007080 catalytic residues [active] 1134782007081 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782007082 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 1134782007083 ATP binding site [chemical binding]; other site 1134782007084 putative Mg++ binding site [ion binding]; other site 1134782007085 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782007086 nucleotide binding region [chemical binding]; other site 1134782007087 ATP-binding site [chemical binding]; other site 1134782007088 DEAD/H associated; Region: DEAD_assoc; pfam08494 1134782007089 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1134782007090 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1134782007091 dimer interface [polypeptide binding]; other site 1134782007092 catalytic site [active] 1134782007093 putative active site [active] 1134782007094 putative substrate binding site [chemical binding]; other site 1134782007095 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1134782007096 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1134782007097 dimer interface [polypeptide binding]; other site 1134782007098 active site 1134782007099 metal binding site [ion binding]; metal-binding site 1134782007100 glutathione binding site [chemical binding]; other site 1134782007101 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1134782007102 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1134782007103 FMN binding site [chemical binding]; other site 1134782007104 active site 1134782007105 substrate binding site [chemical binding]; other site 1134782007106 catalytic residue [active] 1134782007107 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1134782007108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782007109 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1134782007110 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782007111 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782007112 active site 1134782007113 catalytic tetrad [active] 1134782007114 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1134782007115 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1134782007116 E-class dimer interface [polypeptide binding]; other site 1134782007117 P-class dimer interface [polypeptide binding]; other site 1134782007118 active site 1134782007119 Cu2+ binding site [ion binding]; other site 1134782007120 Zn2+ binding site [ion binding]; other site 1134782007121 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1134782007122 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782007123 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1134782007124 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782007125 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782007126 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 1134782007127 transcriptional regulator SlyA; Provisional; Region: PRK03573 1134782007128 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1134782007129 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1134782007130 Uncharacterized protein family (UPF0075); Region: UPF0075; pfam03702 1134782007131 lysozyme inhibitor; Provisional; Region: PRK11372 1134782007132 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1134782007133 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1134782007134 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1134782007135 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1134782007136 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1134782007137 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1134782007138 active site 1134782007139 HIGH motif; other site 1134782007140 dimer interface [polypeptide binding]; other site 1134782007141 KMSKS motif; other site 1134782007142 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782007143 RNA binding surface [nucleotide binding]; other site 1134782007144 pyridoxamine kinase; Validated; Region: PRK05756 1134782007145 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1134782007146 dimer interface [polypeptide binding]; other site 1134782007147 pyridoxal binding site [chemical binding]; other site 1134782007148 ATP binding site [chemical binding]; other site 1134782007149 glutathionine S-transferase; Provisional; Region: PRK10542 1134782007150 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1134782007151 C-terminal domain interface [polypeptide binding]; other site 1134782007152 GSH binding site (G-site) [chemical binding]; other site 1134782007153 dimer interface [polypeptide binding]; other site 1134782007154 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1134782007155 N-terminal domain interface [polypeptide binding]; other site 1134782007156 dimer interface [polypeptide binding]; other site 1134782007157 substrate binding pocket (H-site) [chemical binding]; other site 1134782007158 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1134782007159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007160 putative substrate translocation pore; other site 1134782007161 POT family; Region: PTR2; pfam00854 1134782007162 endonuclease III; Provisional; Region: PRK10702 1134782007163 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1134782007164 minor groove reading motif; other site 1134782007165 helix-hairpin-helix signature motif; other site 1134782007166 substrate binding pocket [chemical binding]; other site 1134782007167 active site 1134782007168 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1134782007169 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1134782007170 electron transport complex protein RnfG; Validated; Region: PRK01908 1134782007171 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1134782007172 electron transport complex protein RnfC; Provisional; Region: PRK05035 1134782007173 SLBB domain; Region: SLBB; pfam10531 1134782007174 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782007175 electron transport complex protein RnfB; Provisional; Region: PRK05113 1134782007176 Putative Fe-S cluster; Region: FeS; pfam04060 1134782007177 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782007178 electron transport complex protein RsxA; Provisional; Region: PRK05151 1134782007179 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1134782007180 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 1134782007181 putative oxidoreductase; Provisional; Region: PRK11579 1134782007182 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782007183 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1134782007184 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1134782007185 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1134782007186 active site 1134782007187 purine riboside binding site [chemical binding]; other site 1134782007188 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1134782007189 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782007190 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782007191 homodimer interface [polypeptide binding]; other site 1134782007192 catalytic residue [active] 1134782007193 bifunctional PTS system maltose and glucose-specific transporter subunits IICB; Provisional; Region: PRK10110 1134782007194 PTS system, maltose and glucose-specific subfamily, IIC component; Region: pts-Glc; TIGR00852 1134782007195 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782007196 active site turn [active] 1134782007197 phosphorylation site [posttranslational modification] 1134782007198 DNA-binding transcriptional repressor MalI; Provisional; Region: PRK10014 1134782007199 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782007200 DNA binding site [nucleotide binding] 1134782007201 domain linker motif; other site 1134782007202 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1134782007203 putative dimerization interface [polypeptide binding]; other site 1134782007204 putative ligand binding site [chemical binding]; other site 1134782007205 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1134782007206 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1134782007207 NAD binding site [chemical binding]; other site 1134782007208 substrate binding site [chemical binding]; other site 1134782007209 homotetramer interface [polypeptide binding]; other site 1134782007210 homodimer interface [polypeptide binding]; other site 1134782007211 active site 1134782007212 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1134782007213 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782007214 beta-D-glucuronidase; Provisional; Region: PRK10150 1134782007215 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1134782007216 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1134782007217 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1134782007218 glucuronide transporter; Provisional; Region: PRK09848 1134782007219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007220 putative substrate translocation pore; other site 1134782007221 putative outer membrane porin protein; Provisional; Region: PRK11379 1134782007222 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1134782007223 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1134782007224 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1134782007225 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1134782007226 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 1134782007227 fumarate hydratase; Provisional; Region: PRK15389 1134782007228 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1134782007229 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1134782007230 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1134782007231 Class II fumarases; Region: Fumarase_classII; cd01362 1134782007232 active site 1134782007233 tetramer interface [polypeptide binding]; other site 1134782007234 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 1134782007235 sensor protein RstB; Provisional; Region: PRK10604 1134782007236 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782007237 dimerization interface [polypeptide binding]; other site 1134782007238 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782007239 dimer interface [polypeptide binding]; other site 1134782007240 phosphorylation site [posttranslational modification] 1134782007241 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782007242 ATP binding site [chemical binding]; other site 1134782007243 Mg2+ binding site [ion binding]; other site 1134782007244 G-X-G motif; other site 1134782007245 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1134782007246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782007247 active site 1134782007248 phosphorylation site [posttranslational modification] 1134782007249 intermolecular recognition site; other site 1134782007250 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782007251 DNA binding site [nucleotide binding] 1134782007252 GlpM protein; Region: GlpM; pfam06942 1134782007253 dihydromonapterin reductase; Provisional; Region: PRK06483 1134782007254 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1134782007255 NADP binding site [chemical binding]; other site 1134782007256 substrate binding pocket [chemical binding]; other site 1134782007257 active site 1134782007258 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1134782007259 Spore germination protein; Region: Spore_permease; cl17796 1134782007260 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782007261 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782007262 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782007263 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1134782007264 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1134782007265 ligand binding site [chemical binding]; other site 1134782007266 homodimer interface [polypeptide binding]; other site 1134782007267 NAD(P) binding site [chemical binding]; other site 1134782007268 trimer interface B [polypeptide binding]; other site 1134782007269 trimer interface A [polypeptide binding]; other site 1134782007270 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1134782007271 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1134782007272 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1134782007273 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; PRK12287 1134782007274 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1134782007275 multidrug efflux system protein MdtJ; Provisional; Region: PRK10452 1134782007276 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1134782007277 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1134782007278 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1134782007279 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007280 putative substrate translocation pore; other site 1134782007281 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1134782007282 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782007283 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1134782007284 dimerization interface [polypeptide binding]; other site 1134782007285 substrate binding pocket [chemical binding]; other site 1134782007286 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1134782007287 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1134782007288 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782007289 nucleotide binding site [chemical binding]; other site 1134782007290 putative dithiobiotin synthetase; Provisional; Region: PRK12374 1134782007291 AAA domain; Region: AAA_26; pfam13500 1134782007292 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 1134782007293 Cl- selectivity filter; other site 1134782007294 Cl- binding residues [ion binding]; other site 1134782007295 pore gating glutamate residue; other site 1134782007296 dimer interface [polypeptide binding]; other site 1134782007297 twin-argninine leader-binding protein DmsD; Provisional; Region: PRK11621 1134782007298 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1134782007299 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 1134782007300 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1134782007301 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 1134782007302 Int/Topo IB signature motif; other site 1134782007303 Helix-turn-helix domain; Region: HTH_17; pfam12728 1134782007304 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1134782007305 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1134782007306 phage recombination protein Bet; Region: bet_lambda; TIGR01913 1134782007307 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 1134782007308 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 1134782007309 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 1134782007310 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007311 non-specific DNA binding site [nucleotide binding]; other site 1134782007312 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1134782007313 salt bridge; other site 1134782007314 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007315 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782007316 Catalytic site [active] 1134782007317 Cro; Region: Cro; pfam09048 1134782007318 Bacteriophage CII protein; Region: Phage_CII; pfam05269 1134782007319 primosomal protein DnaI; Provisional; Region: PRK02854 1134782007320 putative replication protein; Provisional; Region: PRK12377 1134782007321 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782007322 Walker A motif; other site 1134782007323 ATP binding site [chemical binding]; other site 1134782007324 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 1134782007325 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 1134782007326 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1134782007327 Hok/gef family; Region: HOK_GEF; pfam01848 1134782007328 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1134782007329 Predicted transcriptional regulator [Transcription]; Region: COG2944 1134782007330 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007331 non-specific DNA binding site [nucleotide binding]; other site 1134782007332 salt bridge; other site 1134782007333 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007334 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 1134782007335 ORF6N domain; Region: ORF6N; pfam10543 1134782007336 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1134782007337 NinB protein; Region: NinB; pfam05772 1134782007338 NINE Protein; Region: NinE; pfam05322 1134782007339 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 1134782007340 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1134782007341 Phage NinH protein; Region: Phage_NinH; pfam06322 1134782007342 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1134782007343 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 1134782007344 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782007345 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 1134782007346 Protein of unknown function (DUF826); Region: DUF826; pfam05696 1134782007347 Lysis protein S; Region: Lysis_S; pfam04971 1134782007348 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1134782007349 catalytic residues [active] 1134782007350 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1134782007351 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 1134782007352 catalytic core [active] 1134782007353 large terminase protein; Provisional; Region: 17; PHA02533 1134782007354 large terminase protein; Provisional; Region: 17; PHA02533 1134782007355 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1134782007356 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 1134782007357 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1134782007358 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1134782007359 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1134782007360 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782007361 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782007362 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1134782007363 Hok/gef family; Region: HOK_GEF; pfam01848 1134782007364 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1134782007365 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782007366 DksA-like zinc finger domain containing protein; Region: PHA00080 1134782007367 Phage anti-repressor protein [Transcription]; Region: COG3561 1134782007368 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1134782007369 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1134782007370 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1134782007371 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1134782007372 putative [Fe4-S4] binding site [ion binding]; other site 1134782007373 putative molybdopterin cofactor binding site [chemical binding]; other site 1134782007374 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1134782007375 putative molybdopterin cofactor binding site; other site 1134782007376 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 1134782007377 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1134782007378 putative [Fe4-S4] binding site [ion binding]; other site 1134782007379 putative molybdopterin cofactor binding site [chemical binding]; other site 1134782007380 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1134782007381 putative molybdopterin cofactor binding site; other site 1134782007382 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1134782007383 Uncharacterized protein family (UPF0257); Region: UPF0257; pfam06788 1134782007384 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1134782007385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782007386 Coenzyme A binding pocket [chemical binding]; other site 1134782007387 hypothetical protein; Provisional; Region: PRK13659 1134782007388 hypothetical protein; Provisional; Region: PRK02237 1134782007389 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 1134782007390 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 1134782007391 putative active site pocket [active] 1134782007392 putative metal binding site [ion binding]; other site 1134782007393 putative oxidoreductase; Provisional; Region: PRK10083 1134782007394 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1134782007395 putative NAD(P) binding site [chemical binding]; other site 1134782007396 catalytic Zn binding site [ion binding]; other site 1134782007397 structural Zn binding site [ion binding]; other site 1134782007398 metabolite-proton symporter; Region: 2A0106; TIGR00883 1134782007399 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007400 putative substrate translocation pore; other site 1134782007401 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1134782007402 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1134782007403 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1134782007404 putative selenium-binding protein YdfZ; Region: YdfZ_fam; TIGR03318 1134782007405 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1134782007406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782007407 DNA-binding site [nucleotide binding]; DNA binding site 1134782007408 FCD domain; Region: FCD; pfam07729 1134782007409 malonic semialdehyde reductase; Provisional; Region: PRK10538 1134782007410 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 1134782007411 putative NAD(P) binding site [chemical binding]; other site 1134782007412 homodimer interface [polypeptide binding]; other site 1134782007413 homotetramer interface [polypeptide binding]; other site 1134782007414 active site 1134782007415 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 1134782007416 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1134782007417 active site 1134782007418 Zn binding site [ion binding]; other site 1134782007419 hypothetical protein; Validated; Region: PRK03657 1134782007420 hypothetical protein; Provisional; Region: PRK10053 1134782007421 diguanylate cyclase; Provisional; Region: PRK09894 1134782007422 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1134782007423 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782007424 metal binding site [ion binding]; metal-binding site 1134782007425 active site 1134782007426 I-site; other site 1134782007427 putative transporter; Provisional; Region: PRK10054 1134782007428 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007429 putative substrate translocation pore; other site 1134782007430 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1134782007431 EamA-like transporter family; Region: EamA; pfam00892 1134782007432 EamA-like transporter family; Region: EamA; pfam00892 1134782007433 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1134782007434 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782007435 DNA-binding site [nucleotide binding]; DNA binding site 1134782007436 UTRA domain; Region: UTRA; pfam07702 1134782007437 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1134782007438 active site 1134782007439 P-loop; other site 1134782007440 phosphorylation site [posttranslational modification] 1134782007441 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1134782007442 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1134782007443 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1134782007444 active site 1134782007445 methionine cluster; other site 1134782007446 phosphorylation site [posttranslational modification] 1134782007447 metal binding site [ion binding]; metal-binding site 1134782007448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1134782007449 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1134782007450 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1134782007451 trimer interface; other site 1134782007452 sugar binding site [chemical binding]; other site 1134782007453 6-phospho-beta-glucosidase; Reviewed; Region: celA; PRK09589 1134782007454 beta-galactosidase; Region: BGL; TIGR03356 1134782007455 hypothetical protein; Provisional; Region: PRK10106 1134782007456 DNA-binding transcriptional activator MarA; Provisional; Region: PRK11511 1134782007457 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782007458 DNA-binding transcriptional repressor MarR; Provisional; Region: PRK11512 1134782007459 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1134782007460 inner membrane protein; Provisional; Region: PRK10995 1134782007461 putative arabinose transporter; Provisional; Region: PRK03545 1134782007462 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782007463 putative substrate translocation pore; other site 1134782007464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782007465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782007466 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 1134782007467 putative dimerization interface [polypeptide binding]; other site 1134782007468 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 1134782007469 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1134782007470 NAD(P) binding site [chemical binding]; other site 1134782007471 catalytic residues [active] 1134782007472 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1134782007473 glutaminase; Provisional; Region: PRK00971 1134782007474 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1134782007475 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782007476 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782007477 metal binding site [ion binding]; metal-binding site 1134782007478 active site 1134782007479 I-site; other site 1134782007480 altronate oxidoreductase; Provisional; Region: PRK03643 1134782007481 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1134782007482 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1134782007483 Predicted membrane protein [Function unknown]; Region: COG3781 1134782007484 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1134782007485 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782007486 S-adenosylmethionine binding site [chemical binding]; other site 1134782007487 autoinducer-2 (AI-2) modifying protein LsrG; Provisional; Region: PRK10486 1134782007488 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 1134782007489 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 1134782007490 putative active site; other site 1134782007491 catalytic residue [active] 1134782007492 autoinducer 2-binding protein lsrB; Provisional; Region: PRK15408 1134782007493 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1134782007494 ligand binding site [chemical binding]; other site 1134782007495 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782007496 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782007497 TM-ABC transporter signature motif; other site 1134782007498 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782007499 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782007500 TM-ABC transporter signature motif; other site 1134782007501 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional; Region: PRK15439 1134782007502 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782007503 Walker A/P-loop; other site 1134782007504 ATP binding site [chemical binding]; other site 1134782007505 Q-loop/lid; other site 1134782007506 ABC transporter signature motif; other site 1134782007507 Walker B; other site 1134782007508 D-loop; other site 1134782007509 H-loop/switch region; other site 1134782007510 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782007511 transcriptional regulator LsrR; Provisional; Region: PRK15418 1134782007512 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1134782007513 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1134782007514 autoinducer-2 (AI-2) kinase; Provisional; Region: PRK10939 1134782007515 Autoinducer-2 kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_AI-2K; cd07775 1134782007516 putative N- and C-terminal domain interface [polypeptide binding]; other site 1134782007517 putative active site [active] 1134782007518 putative MgATP binding site [chemical binding]; other site 1134782007519 catalytic site [active] 1134782007520 metal binding site [ion binding]; metal-binding site 1134782007521 putative carbohydrate binding site [chemical binding]; other site 1134782007522 putative lipoprotein; Provisional; Region: PRK09707 1134782007523 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782007524 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782007525 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782007526 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782007527 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1134782007528 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007529 non-specific DNA binding site [nucleotide binding]; other site 1134782007530 salt bridge; other site 1134782007531 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007532 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1134782007533 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1134782007534 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1134782007535 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1134782007536 Helix-turn-helix domain; Region: HTH_18; pfam12833 1134782007537 Fimbrial protein; Region: Fimbrial; cl01416 1134782007538 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 1134782007539 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782007540 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782007541 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1134782007542 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782007543 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782007544 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782007545 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782007546 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782007547 Mannose binding domain of FimH and related proteins; Region: FimH_man-bind; cd10466 1134782007548 mannosyl binding site [chemical binding]; other site 1134782007549 Fimbrial protein; Region: Fimbrial; pfam00419 1134782007550 putative oxidoreductase; Provisional; Region: PRK09939 1134782007551 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1134782007552 putative molybdopterin cofactor binding site [chemical binding]; other site 1134782007553 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1134782007554 putative molybdopterin cofactor binding site; other site 1134782007555 transcriptional regulator YdeO; Provisional; Region: PRK09940 1134782007556 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782007557 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1134782007558 Sulfatase; Region: Sulfatase; cl17466 1134782007559 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782007560 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782007561 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782007562 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1134782007563 Sulfatase; Region: Sulfatase; pfam00884 1134782007564 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1134782007565 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782007566 FeS/SAM binding site; other site 1134782007567 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1134782007568 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1134782007569 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1134782007570 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1134782007571 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1134782007572 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1134782007573 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1134782007574 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1134782007575 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1134782007576 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1134782007577 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1134782007578 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1134782007579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782007580 catalytic residue [active] 1134782007581 glutamate:gamma-aminobutyrate antiporter; Region: 2A0307_GadC; TIGR00910 1134782007582 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1134782007583 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1134782007584 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 1134782007585 heme-binding site [chemical binding]; other site 1134782007586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782007587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782007588 metal binding site [ion binding]; metal-binding site 1134782007589 active site 1134782007590 I-site; other site 1134782007591 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 1134782007592 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782007593 putative active site [active] 1134782007594 heme pocket [chemical binding]; other site 1134782007595 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782007596 putative active site [active] 1134782007597 heme pocket [chemical binding]; other site 1134782007598 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782007599 metal binding site [ion binding]; metal-binding site 1134782007600 active site 1134782007601 I-site; other site 1134782007602 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782007603 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 1134782007604 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1134782007605 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 1134782007606 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1134782007607 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782007608 dimer interface [polypeptide binding]; other site 1134782007609 conserved gate region; other site 1134782007610 putative PBP binding loops; other site 1134782007611 ABC-ATPase subunit interface; other site 1134782007612 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 1134782007613 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1134782007614 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782007615 dimer interface [polypeptide binding]; other site 1134782007616 conserved gate region; other site 1134782007617 putative PBP binding loops; other site 1134782007618 ABC-ATPase subunit interface; other site 1134782007619 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1134782007620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782007621 Walker A/P-loop; other site 1134782007622 ATP binding site [chemical binding]; other site 1134782007623 Q-loop/lid; other site 1134782007624 ABC transporter signature motif; other site 1134782007625 Walker B; other site 1134782007626 D-loop; other site 1134782007627 H-loop/switch region; other site 1134782007628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1134782007629 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1134782007630 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782007631 Walker A/P-loop; other site 1134782007632 ATP binding site [chemical binding]; other site 1134782007633 Q-loop/lid; other site 1134782007634 ABC transporter signature motif; other site 1134782007635 Walker B; other site 1134782007636 D-loop; other site 1134782007637 H-loop/switch region; other site 1134782007638 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1134782007639 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1134782007640 Putative biofilm-dependent modulation protein; Region: BDM; cl11581 1134782007641 30S ribosomal subunit S22; Reviewed; Region: rpsV; PRK10057 1134782007642 malate dehydrogenase; Provisional; Region: PRK13529 1134782007643 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1134782007644 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1134782007645 NAD(P) binding site [chemical binding]; other site 1134782007646 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1134782007647 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1134782007648 NAD binding site [chemical binding]; other site 1134782007649 substrate binding site [chemical binding]; other site 1134782007650 catalytic Zn binding site [ion binding]; other site 1134782007651 tetramer interface [polypeptide binding]; other site 1134782007652 structural Zn binding site [ion binding]; other site 1134782007653 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1134782007654 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007655 non-specific DNA binding site [nucleotide binding]; other site 1134782007656 salt bridge; other site 1134782007657 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007658 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 1134782007659 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1134782007660 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1134782007661 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1134782007662 potential frameshift: common BLAST hit: gi|260867914|ref|YP_003234316.1| formate dehydrogenase-N subunit alpha, nitrate-inducible 1134782007663 aromatic amino acid exporter; Provisional; Region: PRK11689 1134782007664 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1134782007665 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782007666 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 1134782007667 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1134782007668 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1134782007669 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1134782007670 [4Fe-4S] binding site [ion binding]; other site 1134782007671 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782007672 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782007673 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782007674 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1134782007675 molybdopterin cofactor binding site; other site 1134782007676 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1134782007677 nitrate reductase 2 subunit delta; Provisional; Region: PRK15054 1134782007678 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1134782007679 hypothetical protein; Provisional; Region: PRK10281 1134782007680 N-hydroxyarylamine O-acetyltransferase; Provisional; Region: PRK15047 1134782007681 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1134782007682 4-oxalocrotonate tautomerase; Provisional; Region: PRK01271 1134782007683 active site 1 [active] 1134782007684 dimer interface [polypeptide binding]; other site 1134782007685 hexamer interface [polypeptide binding]; other site 1134782007686 active site 2 [active] 1134782007687 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1134782007688 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782007689 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782007690 PAAR motif; Region: PAAR_motif; cl15808 1134782007691 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782007692 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007693 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007694 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007695 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007696 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782007697 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007698 RHS Repeat; Region: RHS_repeat; pfam05593 1134782007699 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1134782007700 RHS protein; Region: RHS; pfam03527 1134782007701 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782007702 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1134782007703 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1134782007704 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1134782007705 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1134782007706 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1134782007707 C-terminal domain interface [polypeptide binding]; other site 1134782007708 GSH binding site (G-site) [chemical binding]; other site 1134782007709 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1134782007710 dimer interface [polypeptide binding]; other site 1134782007711 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1134782007712 dimer interface [polypeptide binding]; other site 1134782007713 N-terminal domain interface [polypeptide binding]; other site 1134782007714 substrate binding pocket (H-site) [chemical binding]; other site 1134782007715 L-asparagine permease; Provisional; Region: PRK15049 1134782007716 PQQ-like domain; Region: PQQ_2; pfam13360 1134782007717 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1134782007718 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782007719 N-terminal plug; other site 1134782007720 ligand-binding site [chemical binding]; other site 1134782007721 colanic acid/biofilm transcriptional regulator; Provisional; Region: PRK11414 1134782007722 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782007723 DNA-binding site [nucleotide binding]; DNA binding site 1134782007724 FCD domain; Region: FCD; pfam07729 1134782007725 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1134782007726 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1134782007727 NAD(P) binding site [chemical binding]; other site 1134782007728 substrate binding site [chemical binding]; other site 1134782007729 dimer interface [polypeptide binding]; other site 1134782007730 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1134782007731 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1134782007732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3238 1134782007733 Protein of unknown function (DUF2526); Region: DUF2526; pfam10735 1134782007734 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1134782007735 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1134782007736 trimer interface [polypeptide binding]; other site 1134782007737 active site 1134782007738 substrate binding site [chemical binding]; other site 1134782007739 CoA binding site [chemical binding]; other site 1134782007740 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 1134782007741 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 1134782007742 tetrameric interface [polypeptide binding]; other site 1134782007743 NAD binding site [chemical binding]; other site 1134782007744 catalytic residues [active] 1134782007745 substrate binding site [chemical binding]; other site 1134782007746 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1134782007747 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782007748 ABC-ATPase subunit interface; other site 1134782007749 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782007750 dimer interface [polypeptide binding]; other site 1134782007751 conserved gate region; other site 1134782007752 putative PBP binding loops; other site 1134782007753 ABC-ATPase subunit interface; other site 1134782007754 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1134782007755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782007756 Walker A/P-loop; other site 1134782007757 ATP binding site [chemical binding]; other site 1134782007758 Q-loop/lid; other site 1134782007759 ABC transporter signature motif; other site 1134782007760 Walker B; other site 1134782007761 D-loop; other site 1134782007762 H-loop/switch region; other site 1134782007763 TOBE domain; Region: TOBE_2; pfam08402 1134782007764 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1134782007765 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1134782007766 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1134782007767 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782007768 DNA-binding site [nucleotide binding]; DNA binding site 1134782007769 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782007770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782007771 homodimer interface [polypeptide binding]; other site 1134782007772 catalytic residue [active] 1134782007773 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 1134782007774 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007775 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007776 salt bridge; other site 1134782007777 Protein of unknown function (DUF2554); Region: DUF2554; pfam10829 1134782007778 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1134782007779 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1134782007780 Peptidase family U32; Region: Peptidase_U32; pfam01136 1134782007781 Collagenase; Region: DUF3656; pfam12392 1134782007782 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1134782007783 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782007784 non-specific DNA binding site [nucleotide binding]; other site 1134782007785 salt bridge; other site 1134782007786 sequence-specific DNA binding site [nucleotide binding]; other site 1134782007787 Cupin domain; Region: Cupin_2; pfam07883 1134782007788 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1134782007789 benzoate transporter; Region: benE; TIGR00843 1134782007790 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1134782007791 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1134782007792 Probable transposase; Region: OrfB_IS605; pfam01385 1134782007793 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1134782007794 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1134782007795 tellurite resistance protein TehB; Provisional; Region: PRK11207 1134782007796 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782007797 S-adenosylmethionine binding site [chemical binding]; other site 1134782007798 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1134782007799 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes TehA protein; Region: TDT_TehA; cd09324 1134782007800 gating phenylalanine in ion channel; other site 1134782007801 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cd00208 1134782007802 putative trimer interface [polypeptide binding]; other site 1134782007803 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1134782007804 putative CoA binding site [chemical binding]; other site 1134782007805 putative trimer interface [polypeptide binding]; other site 1134782007806 putative CoA binding site [chemical binding]; other site 1134782007807 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1134782007808 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782007809 Coenzyme A binding pocket [chemical binding]; other site 1134782007810 hypothetical protein; Provisional; Region: PRK11415 1134782007811 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 1134782007812 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 1134782007813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1134782007814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1134782007815 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1134782007816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782007817 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782007818 dimerization interface [polypeptide binding]; other site 1134782007819 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 1134782007820 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1134782007821 dimer interface [polypeptide binding]; other site 1134782007822 ligand binding site [chemical binding]; other site 1134782007823 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782007824 dimerization interface [polypeptide binding]; other site 1134782007825 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1134782007826 dimer interface [polypeptide binding]; other site 1134782007827 putative CheW interface [polypeptide binding]; other site 1134782007828 small toxic polypeptide; Provisional; Region: PRK09738 1134782007829 hypothetical protein; Provisional; Region: PRK10040 1134782007830 cytochrome b561; Provisional; Region: PRK11513 1134782007831 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1134782007832 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1134782007833 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1134782007834 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 1134782007835 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1134782007836 NAD binding site [chemical binding]; other site 1134782007837 catalytic residues [active] 1134782007838 substrate binding site [chemical binding]; other site 1134782007839 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1134782007840 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1134782007841 putative active site [active] 1134782007842 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782007843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782007844 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782007845 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782007846 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1134782007847 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782007848 ATP binding site [chemical binding]; other site 1134782007849 putative Mg++ binding site [ion binding]; other site 1134782007850 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782007851 nucleotide binding region [chemical binding]; other site 1134782007852 ATP-binding site [chemical binding]; other site 1134782007853 Helicase associated domain (HA2); Region: HA2; pfam04408 1134782007854 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1134782007855 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1134782007856 azoreductase; Reviewed; Region: PRK00170 1134782007857 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1134782007858 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 1134782007859 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1134782007860 active site 1134782007861 Dual specificity phosphatase, catalytic domain; Region: DSPc; smart00195 1134782007862 active site 1134782007863 catalytic residues [active] 1134782007864 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1134782007865 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1134782007866 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782007867 S-adenosylmethionine binding site [chemical binding]; other site 1134782007868 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 1134782007869 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1134782007870 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1134782007871 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1134782007872 Protein of unknown function (DUF2773); Region: DUF2773; pfam10971 1134782007873 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782007874 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782007875 active site 1134782007876 catalytic tetrad [active] 1134782007877 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 1134782007878 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1134782007879 putative trimer interface [polypeptide binding]; other site 1134782007880 putative metal binding site [ion binding]; other site 1134782007881 PaaX-like protein; Region: PaaX; pfam07848 1134782007882 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 1134782007883 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 1134782007884 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 1134782007885 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 1134782007886 active site 1134782007887 AMP binding site [chemical binding]; other site 1134782007888 homodimer interface [polypeptide binding]; other site 1134782007889 acyl-activating enzyme (AAE) consensus motif; other site 1134782007890 CoA binding site [chemical binding]; other site 1134782007891 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1134782007892 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1134782007893 dimer interface [polypeptide binding]; other site 1134782007894 active site 1134782007895 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1134782007896 CoenzymeA binding site [chemical binding]; other site 1134782007897 subunit interaction site [polypeptide binding]; other site 1134782007898 PHB binding site; other site 1134782007899 3-hydroxyacyl-CoA dehydrogenase PaaC; Region: PaaC-3OHAcCoADH; TIGR02279 1134782007900 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1134782007901 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1134782007902 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1134782007903 enoyl-CoA hydratase; Provisional; Region: PRK08140 1134782007904 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782007905 substrate binding site [chemical binding]; other site 1134782007906 oxyanion hole (OAH) forming residues; other site 1134782007907 trimer interface [polypeptide binding]; other site 1134782007908 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 1134782007909 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782007910 substrate binding site [chemical binding]; other site 1134782007911 oxyanion hole (OAH) forming residues; other site 1134782007912 trimer interface [polypeptide binding]; other site 1134782007913 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 1134782007914 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 1134782007915 FAD binding pocket [chemical binding]; other site 1134782007916 FAD binding motif [chemical binding]; other site 1134782007917 phosphate binding motif [ion binding]; other site 1134782007918 beta-alpha-beta structure motif; other site 1134782007919 NAD(p) ribose binding residues [chemical binding]; other site 1134782007920 NAD binding pocket [chemical binding]; other site 1134782007921 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 1134782007922 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782007923 catalytic loop [active] 1134782007924 iron binding site [ion binding]; other site 1134782007925 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1134782007926 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 1134782007927 phenylacetate-CoA oxygenase, PaaI subunit; Region: PA_CoA_Oxy3; TIGR02158 1134782007928 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 1134782007929 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 1134782007930 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 1134782007931 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 1134782007932 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 1134782007933 substrate binding site [chemical binding]; other site 1134782007934 dimer interface [polypeptide binding]; other site 1134782007935 NADP binding site [chemical binding]; other site 1134782007936 catalytic residues [active] 1134782007937 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 1134782007938 substrate binding site [chemical binding]; other site 1134782007939 tyramine oxidase; Provisional; Region: tynA; PRK14696 1134782007940 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 1134782007941 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 1134782007942 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 1134782007943 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 1134782007944 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1134782007945 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1134782007946 NAD(P) binding site [chemical binding]; other site 1134782007947 catalytic residues [active] 1134782007948 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1134782007949 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782007950 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 1134782007951 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1134782007952 hypothetical protein; Provisional; Region: PRK10695 1134782007953 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1134782007954 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1134782007955 putative ligand binding site [chemical binding]; other site 1134782007956 putative NAD binding site [chemical binding]; other site 1134782007957 catalytic site [active] 1134782007958 heat-inducible protein; Provisional; Region: PRK10449 1134782007959 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1134782007960 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1134782007961 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1134782007962 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1134782007963 dimer interface [polypeptide binding]; other site 1134782007964 PYR/PP interface [polypeptide binding]; other site 1134782007965 TPP binding site [chemical binding]; other site 1134782007966 substrate binding site [chemical binding]; other site 1134782007967 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1134782007968 Domain of unknown function; Region: EKR; smart00890 1134782007969 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1134782007970 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782007971 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1134782007972 TPP-binding site [chemical binding]; other site 1134782007973 dimer interface [polypeptide binding]; other site 1134782007974 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782007975 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1134782007976 trimer interface [polypeptide binding]; other site 1134782007977 eyelet of channel; other site 1134782007978 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782007979 Ligand Binding Site [chemical binding]; other site 1134782007980 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1134782007981 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1134782007982 Ligand Binding Site [chemical binding]; other site 1134782007983 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1134782007984 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1134782007985 ATP binding site [chemical binding]; other site 1134782007986 Mg++ binding site [ion binding]; other site 1134782007987 motif III; other site 1134782007988 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782007989 nucleotide binding region [chemical binding]; other site 1134782007990 ATP-binding site [chemical binding]; other site 1134782007991 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1134782007992 putative RNA binding site [nucleotide binding]; other site 1134782007993 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1134782007994 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1134782007995 Cl binding site [ion binding]; other site 1134782007996 oligomer interface [polypeptide binding]; other site 1134782007997 PAS domain S-box; Region: sensory_box; TIGR00229 1134782007998 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782007999 putative active site [active] 1134782008000 heme pocket [chemical binding]; other site 1134782008001 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782008002 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782008003 metal binding site [ion binding]; metal-binding site 1134782008004 active site 1134782008005 I-site; other site 1134782008006 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1134782008007 Smr domain; Region: Smr; pfam01713 1134782008008 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 1134782008009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782008010 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 1134782008011 putative substrate binding pocket [chemical binding]; other site 1134782008012 putative dimerization interface [polypeptide binding]; other site 1134782008013 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 1134782008014 amidohydrolase; Region: amidohydrolases; TIGR01891 1134782008015 putative metal binding site [ion binding]; other site 1134782008016 dimer interface [polypeptide binding]; other site 1134782008017 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 1134782008018 amidohydrolase; Region: amidohydrolases; TIGR01891 1134782008019 putative metal binding site [ion binding]; other site 1134782008020 putative aminobenzoyl-glutamate transporter; Provisional; Region: abgT; PRK11339 1134782008021 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1134782008022 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional; Region: PRK10286 1134782008023 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1134782008024 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1134782008025 DNA binding site [nucleotide binding] 1134782008026 active site 1134782008027 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1134782008028 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1134782008029 ligand binding site [chemical binding]; other site 1134782008030 flexible hinge region; other site 1134782008031 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1134782008032 putative switch regulator; other site 1134782008033 non-specific DNA interactions [nucleotide binding]; other site 1134782008034 DNA binding site [nucleotide binding] 1134782008035 sequence specific DNA binding site [nucleotide binding]; other site 1134782008036 putative cAMP binding site [chemical binding]; other site 1134782008037 universal stress protein UspE; Provisional; Region: PRK11175 1134782008038 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782008039 Ligand Binding Site [chemical binding]; other site 1134782008040 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782008041 Ligand Binding Site [chemical binding]; other site 1134782008042 Protein of unknown function (DUF2534); Region: DUF2534; pfam10749 1134782008043 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1134782008044 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782008045 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1134782008046 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1134782008047 peptide binding site [polypeptide binding]; other site 1134782008048 Uncharacterized BCR, COG1636; Region: DUF208; cl17782 1134782008049 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782008050 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782008051 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1134782008052 putative effector binding pocket; other site 1134782008053 putative dimerization interface [polypeptide binding]; other site 1134782008054 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1134782008055 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1134782008056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1134782008057 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1134782008058 Peptidase M14-like domain of Escherichia coli Murein Peptide Amidase A and related proteins; Region: M14_MpaA_like; cd06904 1134782008059 putative active site [active] 1134782008060 Zn binding site [ion binding]; other site 1134782008061 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1134782008062 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1134782008063 active site 1134782008064 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1134782008065 dimer interface [polypeptide binding]; other site 1134782008066 catalytic triad [active] 1134782008067 peroxidatic and resolving cysteines [active] 1134782008068 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 1134782008069 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1134782008070 putative aromatic amino acid binding site; other site 1134782008071 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782008072 Walker A motif; other site 1134782008073 ATP binding site [chemical binding]; other site 1134782008074 Walker B motif; other site 1134782008075 arginine finger; other site 1134782008076 Predicted membrane protein [Function unknown]; Region: COG3768 1134782008077 TIGR01620 family protein; Region: hyp_HI0043 1134782008078 Predicted ATPase [General function prediction only]; Region: COG3106 1134782008079 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1134782008080 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782008081 DNA binding site [nucleotide binding] 1134782008082 domain linker motif; other site 1134782008083 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1134782008084 putative dimerization interface [polypeptide binding]; other site 1134782008085 putative ligand binding site [chemical binding]; other site 1134782008086 Outer membrane protein G (OmpG); Region: Porin_OmpG; pfam09381 1134782008087 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1134782008088 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1134782008089 Walker A/P-loop; other site 1134782008090 ATP binding site [chemical binding]; other site 1134782008091 Q-loop/lid; other site 1134782008092 ABC transporter signature motif; other site 1134782008093 Walker B; other site 1134782008094 D-loop; other site 1134782008095 H-loop/switch region; other site 1134782008096 TOBE domain; Region: TOBE_2; pfam08402 1134782008097 beta-phosphoglucomutase; Region: bPGM; TIGR01990 1134782008098 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782008099 motif II; other site 1134782008100 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1134782008101 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1134782008102 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1134782008103 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 1134782008104 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1134782008105 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782008106 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1134782008107 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1134782008108 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782008109 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 1134782008110 putative NAD(P) binding site [chemical binding]; other site 1134782008111 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1134782008112 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008113 dimer interface [polypeptide binding]; other site 1134782008114 conserved gate region; other site 1134782008115 putative PBP binding loops; other site 1134782008116 ABC-ATPase subunit interface; other site 1134782008117 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1134782008118 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008119 dimer interface [polypeptide binding]; other site 1134782008120 conserved gate region; other site 1134782008121 putative PBP binding loops; other site 1134782008122 ABC-ATPase subunit interface; other site 1134782008123 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1134782008124 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1134782008125 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 1134782008126 sucrose phosphorylase; Provisional; Region: PRK13840 1134782008127 active site 1134782008128 homodimer interface [polypeptide binding]; other site 1134782008129 catalytic site [active] 1134782008130 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1134782008131 active site residue [active] 1134782008132 peripheral inner membrane phage-shock protein; Provisional; Region: PRK10497 1134782008133 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 1134782008134 phage shock protein C; Region: phageshock_pspC; TIGR02978 1134782008135 phage shock protein B; Provisional; Region: pspB; PRK09458 1134782008136 phage shock protein PspA; Provisional; Region: PRK10698 1134782008137 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1134782008138 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782008139 Walker A motif; other site 1134782008140 ATP binding site [chemical binding]; other site 1134782008141 Walker B motif; other site 1134782008142 arginine finger; other site 1134782008143 4-aminobutyrate transaminase; Provisional; Region: PRK09792 1134782008144 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782008145 inhibitor-cofactor binding pocket; inhibition site 1134782008146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782008147 catalytic residue [active] 1134782008148 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1134782008149 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1134782008150 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 1134782008151 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1134782008152 NAD(P) binding site [chemical binding]; other site 1134782008153 catalytic residues [active] 1134782008154 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1134782008155 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782008156 non-specific DNA binding site [nucleotide binding]; other site 1134782008157 salt bridge; other site 1134782008158 sequence-specific DNA binding site [nucleotide binding]; other site 1134782008159 Cupin domain; Region: Cupin_2; pfam07883 1134782008160 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 1134782008161 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1134782008162 catalytic triad [active] 1134782008163 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1134782008164 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1134782008165 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1134782008166 Protein of unknown function (DUF2543); Region: DUF2543; pfam10820 1134782008167 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1134782008168 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1134782008169 peptide binding site [polypeptide binding]; other site 1134782008170 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 1134782008171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008172 dimer interface [polypeptide binding]; other site 1134782008173 conserved gate region; other site 1134782008174 putative PBP binding loops; other site 1134782008175 ABC-ATPase subunit interface; other site 1134782008176 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1134782008177 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1134782008178 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008179 dimer interface [polypeptide binding]; other site 1134782008180 conserved gate region; other site 1134782008181 putative PBP binding loops; other site 1134782008182 ABC-ATPase subunit interface; other site 1134782008183 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1134782008184 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782008185 Walker A/P-loop; other site 1134782008186 ATP binding site [chemical binding]; other site 1134782008187 Q-loop/lid; other site 1134782008188 ABC transporter signature motif; other site 1134782008189 Walker B; other site 1134782008190 D-loop; other site 1134782008191 H-loop/switch region; other site 1134782008192 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1134782008193 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 1134782008194 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782008195 Walker A/P-loop; other site 1134782008196 ATP binding site [chemical binding]; other site 1134782008197 Q-loop/lid; other site 1134782008198 ABC transporter signature motif; other site 1134782008199 Walker B; other site 1134782008200 D-loop; other site 1134782008201 H-loop/switch region; other site 1134782008202 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 1134782008203 putative active site [active] 1134782008204 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07984 1134782008205 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1134782008206 NAD binding site [chemical binding]; other site 1134782008207 homotetramer interface [polypeptide binding]; other site 1134782008208 homodimer interface [polypeptide binding]; other site 1134782008209 substrate binding site [chemical binding]; other site 1134782008210 active site 1134782008211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950 1134782008212 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1134782008213 exoribonuclease II; Provisional; Region: PRK05054 1134782008214 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1134782008215 RNB domain; Region: RNB; pfam00773 1134782008216 S1 RNA binding domain; Region: S1; pfam00575 1134782008217 RNase II stability modulator; Provisional; Region: PRK10060 1134782008218 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782008219 putative active site [active] 1134782008220 heme pocket [chemical binding]; other site 1134782008221 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782008222 metal binding site [ion binding]; metal-binding site 1134782008223 active site 1134782008224 I-site; other site 1134782008225 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782008226 hypothetical protein; Provisional; Region: PRK13658 1134782008227 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782008228 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1134782008229 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782008230 lipoprotein; Provisional; Region: PRK10540 1134782008231 translation initiation factor Sui1; Validated; Region: PRK06824 1134782008232 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1134782008233 putative rRNA binding site [nucleotide binding]; other site 1134782008234 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1134782008235 active site 1134782008236 dimer interface [polypeptide binding]; other site 1134782008237 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 1134782008238 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1134782008239 TPR motif; other site 1134782008240 binding surface 1134782008241 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782008242 binding surface 1134782008243 TPR motif; other site 1134782008244 Predicted membrane protein [Function unknown]; Region: COG3771 1134782008245 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1134782008246 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1134782008247 active site 1134782008248 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1134782008249 dimerization interface [polypeptide binding]; other site 1134782008250 active site 1134782008251 aconitate hydratase; Validated; Region: PRK09277 1134782008252 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1134782008253 substrate binding site [chemical binding]; other site 1134782008254 ligand binding site [chemical binding]; other site 1134782008255 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1134782008256 substrate binding site [chemical binding]; other site 1134782008257 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1134782008258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782008259 The C-terminal substrate domain of LysR-type transcriptional regulator CysB contains type 2 periplasmic binding fold; Region: PBP2_CysB; cd08443 1134782008260 substrate binding site [chemical binding]; other site 1134782008261 putative dimerization interface [polypeptide binding]; other site 1134782008262 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1134782008263 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1134782008264 active site 1134782008265 interdomain interaction site; other site 1134782008266 putative metal-binding site [ion binding]; other site 1134782008267 nucleotide binding site [chemical binding]; other site 1134782008268 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1134782008269 domain I; other site 1134782008270 DNA binding groove [nucleotide binding] 1134782008271 phosphate binding site [ion binding]; other site 1134782008272 domain II; other site 1134782008273 domain III; other site 1134782008274 nucleotide binding site [chemical binding]; other site 1134782008275 catalytic site [active] 1134782008276 domain IV; other site 1134782008277 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1134782008278 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1134782008279 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1134782008280 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1134782008281 hypothetical protein; Provisional; Region: PRK11037 1134782008282 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1134782008283 putative inner membrane peptidase; Provisional; Region: PRK11778 1134782008284 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1134782008285 tandem repeat interface [polypeptide binding]; other site 1134782008286 oligomer interface [polypeptide binding]; other site 1134782008287 active site residues [active] 1134782008288 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1134782008289 Escherichia coli K-12 YCIK-like, classical (c) SDRs; Region: Ycik_SDR_c; cd05340 1134782008290 NADP binding site [chemical binding]; other site 1134782008291 homodimer interface [polypeptide binding]; other site 1134782008292 active site 1134782008293 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1134782008294 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 1134782008295 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1134782008296 homodimer interface [polypeptide binding]; other site 1134782008297 Walker A motif; other site 1134782008298 ATP binding site [chemical binding]; other site 1134782008299 hydroxycobalamin binding site [chemical binding]; other site 1134782008300 Walker B motif; other site 1134782008301 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1134782008302 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782008303 RNA binding surface [nucleotide binding]; other site 1134782008304 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1134782008305 probable active site [active] 1134782008306 hypothetical protein; Provisional; Region: PRK11630 1134782008307 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1134782008308 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1134782008309 active site 1134782008310 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1134782008311 anthranilate synthase component I; Provisional; Region: PRK13564 1134782008312 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1134782008313 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1134782008314 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 1134782008315 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1134782008316 glutamine binding [chemical binding]; other site 1134782008317 catalytic triad [active] 1134782008318 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1134782008319 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1134782008320 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1134782008321 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1134782008322 active site 1134782008323 ribulose/triose binding site [chemical binding]; other site 1134782008324 phosphate binding site [ion binding]; other site 1134782008325 substrate (anthranilate) binding pocket [chemical binding]; other site 1134782008326 product (indole) binding pocket [chemical binding]; other site 1134782008327 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1134782008328 active site 1134782008329 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1134782008330 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1134782008331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782008332 catalytic residue [active] 1134782008333 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1134782008334 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1134782008335 substrate binding site [chemical binding]; other site 1134782008336 active site 1134782008337 catalytic residues [active] 1134782008338 heterodimer interface [polypeptide binding]; other site 1134782008339 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 1134782008340 dimerization interface [polypeptide binding]; other site 1134782008341 metal binding site [ion binding]; metal-binding site 1134782008342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3685 1134782008343 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1134782008344 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1134782008345 Methyltransferase domain; Region: Methyltransf_12; pfam08242 1134782008346 S-adenosylmethionine binding site [chemical binding]; other site 1134782008347 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1134782008348 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1134782008349 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 1134782008350 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782008351 Phage Tail Collar Domain; Region: Collar; pfam07484 1134782008352 Enterobacterial Ail/Lom protein; Region: Ail_Lom; pfam06316 1134782008353 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782008354 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1134782008355 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782008356 Fibronectin type III protein; Region: DUF3672; pfam12421 1134782008357 Phage-related protein, tail component [Function unknown]; Region: COG4723 1134782008358 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1134782008359 MPN+ (JAMM) motif; other site 1134782008360 Zinc-binding site [ion binding]; other site 1134782008361 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782008362 NlpC/P60 family; Region: NLPC_P60; cl17555 1134782008363 Phage-related protein [Function unknown]; Region: gp18; COG4672 1134782008364 Phage-related protein [Function unknown]; Region: COG4718 1134782008365 Phage-related minor tail protein [Function unknown]; Region: COG5281 1134782008366 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1134782008367 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1134782008368 phage tail assembly protein T; Region: phage_lam_T; TIGR01715 1134782008369 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 1134782008370 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1134782008371 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1134782008372 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1134782008373 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1134782008374 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 1134782008375 DNA packaging protein FI; Region: Packaging_FI; pfam14000 1134782008376 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1134782008377 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1134782008378 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1134782008379 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1134782008380 tandem repeat interface [polypeptide binding]; other site 1134782008381 oligomer interface [polypeptide binding]; other site 1134782008382 active site residues [active] 1134782008383 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1134782008384 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1134782008385 gpW; Region: gpW; pfam02831 1134782008386 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1134782008387 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1134782008388 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 1134782008389 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1134782008390 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1134782008391 catalytic residues [active] 1134782008392 Protein of unknown function (DUF1327); Region: DUF1327; pfam07041 1134782008393 Lysis protein S; Region: Lysis_S; pfam04971 1134782008394 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 1134782008395 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782008396 anti-adapter protein IraM; Provisional; Region: PRK09919 1134782008397 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1134782008398 DNA methylase; Region: N6_N4_Mtase; pfam01555 1134782008399 DNA methylase; Region: N6_N4_Mtase; pfam01555 1134782008400 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1134782008401 MarR family; Region: MarR_2; cl17246 1134782008402 Antitermination protein; Region: Antiterm; pfam03589 1134782008403 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1134782008404 Holliday junction resolvase [DNA replication, recombination, and repair]; Region: Rus; COG4570 1134782008405 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1134782008406 Hok/gef family; Region: HOK_GEF; pfam01848 1134782008407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1134782008408 Bacterial protein of unknown function (DUF977); Region: DUF977; pfam06163 1134782008409 Helix-turn-helix domain; Region: HTH_36; pfam13730 1134782008410 primosomal protein DnaI; Provisional; Region: PRK02854 1134782008411 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 1134782008412 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782008413 non-specific DNA binding site [nucleotide binding]; other site 1134782008414 salt bridge; other site 1134782008415 transcriptional repressor DicA; Reviewed; Region: PRK09706 1134782008416 sequence-specific DNA binding site [nucleotide binding]; other site 1134782008417 Protein of unknown function (DUF1391); Region: DUF1391; pfam07151 1134782008418 DicB protein; Region: DicB; pfam05358 1134782008419 Protein of unknown function (DUF1482); Region: DUF1482; pfam07358 1134782008420 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1134782008421 active site 1134782008422 catalytic site [active] 1134782008423 substrate binding site [chemical binding]; other site 1134782008424 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1134782008425 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1134782008426 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 1134782008427 dimer interface [polypeptide binding]; other site 1134782008428 active site 1134782008429 Int/Topo IB signature motif; other site 1134782008430 outer membrane protein W; Provisional; Region: PRK10959 1134782008431 hypothetical protein; Provisional; Region: PRK02868 1134782008432 intracellular septation protein A; Reviewed; Region: PRK00259 1134782008433 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1134782008434 transport protein TonB; Provisional; Region: PRK10819 1134782008435 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1134782008436 YciI-like protein; Reviewed; Region: PRK11370 1134782008437 voltage-gated potassium channel; Provisional; Region: PRK10537 1134782008438 Ion channel; Region: Ion_trans_2; pfam07885 1134782008439 TrkA-N domain; Region: TrkA_N; pfam02254 1134782008440 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1134782008441 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1134782008442 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1134782008443 putative active site [active] 1134782008444 catalytic site [active] 1134782008445 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1134782008446 putative active site [active] 1134782008447 catalytic site [active] 1134782008448 dsDNA-mimic protein; Reviewed; Region: PRK05094 1134782008449 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1134782008450 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782008451 Walker A/P-loop; other site 1134782008452 ATP binding site [chemical binding]; other site 1134782008453 Q-loop/lid; other site 1134782008454 ABC transporter signature motif; other site 1134782008455 Walker B; other site 1134782008456 D-loop; other site 1134782008457 H-loop/switch region; other site 1134782008458 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1134782008459 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1134782008460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782008461 Walker A/P-loop; other site 1134782008462 ATP binding site [chemical binding]; other site 1134782008463 Q-loop/lid; other site 1134782008464 ABC transporter signature motif; other site 1134782008465 Walker B; other site 1134782008466 D-loop; other site 1134782008467 H-loop/switch region; other site 1134782008468 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1134782008469 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1134782008470 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1134782008471 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008472 dimer interface [polypeptide binding]; other site 1134782008473 conserved gate region; other site 1134782008474 putative PBP binding loops; other site 1134782008475 ABC-ATPase subunit interface; other site 1134782008476 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1134782008477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008478 dimer interface [polypeptide binding]; other site 1134782008479 conserved gate region; other site 1134782008480 putative PBP binding loops; other site 1134782008481 ABC-ATPase subunit interface; other site 1134782008482 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1134782008483 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1134782008484 peptide binding site [polypeptide binding]; other site 1134782008485 hypothetical protein; Provisional; Region: PRK11111 1134782008486 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1134782008487 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1134782008488 putative catalytic cysteine [active] 1134782008489 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1134782008490 putative active site [active] 1134782008491 metal binding site [ion binding]; metal-binding site 1134782008492 potential frameshift: common BLAST hit: gi|283787810|ref|YP_003367675.1| ISCro3 transposase 1134782008493 potential frameshift: common BLAST hit: gi|291285848|ref|YP_003502665.1| transposase, IS4 family protein 1134782008494 thymidine kinase; Provisional; Region: PRK04296 1134782008495 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1134782008496 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1134782008497 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1134782008498 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 1134782008499 active site 1134782008500 tetramer interface; other site 1134782008501 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782008502 active site 1134782008503 response regulator of RpoS; Provisional; Region: PRK10693 1134782008504 phosphorylation site [posttranslational modification] 1134782008505 intermolecular recognition site; other site 1134782008506 dimerization interface [polypeptide binding]; other site 1134782008507 hypothetical protein; Provisional; Region: PRK10279 1134782008508 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1134782008509 active site 1134782008510 nucleophile elbow; other site 1134782008511 SEC-C motif; Region: SEC-C; pfam02810 1134782008512 hypothetical protein; Provisional; Region: PRK04233 1134782008513 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1134782008514 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1134782008515 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1134782008516 putative active site [active] 1134782008517 putative substrate binding site [chemical binding]; other site 1134782008518 putative cosubstrate binding site; other site 1134782008519 catalytic site [active] 1134782008520 potential protein location (hypothetical protein O3M_14475 [Escherichia coli O104:H4 str. 2009EL-2050]) that overlaps RNA (tRNA-Y) 1134782008521 respiratory nitrate reductase, gamma subunit; Region: narI; TIGR00351 1134782008522 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1134782008523 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1134782008524 4Fe-4S binding domain; Region: Fer4; cl02805 1134782008525 respiratory nitrate reductase, alpha subunit; Region: narG; TIGR01580 1134782008526 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1134782008527 [4Fe-4S] binding site [ion binding]; other site 1134782008528 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782008529 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782008530 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782008531 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1134782008532 molybdopterin cofactor binding site; other site 1134782008533 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1134782008534 nitrate/nitrite sensor protein NarX; Provisional; Region: PRK10600 1134782008535 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1134782008536 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782008537 dimerization interface [polypeptide binding]; other site 1134782008538 Histidine kinase; Region: HisKA_3; pfam07730 1134782008539 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782008540 ATP binding site [chemical binding]; other site 1134782008541 Mg2+ binding site [ion binding]; other site 1134782008542 G-X-G motif; other site 1134782008543 transcriptional regulator NarL; Provisional; Region: PRK10651 1134782008544 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782008545 active site 1134782008546 phosphorylation site [posttranslational modification] 1134782008547 intermolecular recognition site; other site 1134782008548 dimerization interface [polypeptide binding]; other site 1134782008549 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782008550 DNA binding residues [nucleotide binding] 1134782008551 dimerization interface [polypeptide binding]; other site 1134782008552 putative invasin; Provisional; Region: PRK10177 1134782008553 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1134782008554 Uncharacterized conserved protein involved in intracellular sulfur reduction [Inorganic ion transport and metabolism]; Region: DsrE; COG1553 1134782008555 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1134782008556 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1134782008557 putative active site pocket [active] 1134782008558 dimerization interface [polypeptide binding]; other site 1134782008559 putative catalytic residue [active] 1134782008560 cation transport regulator; Reviewed; Region: chaB; PRK09582 1134782008561 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1134782008562 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1134782008563 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 1134782008564 Toxin Ldr, type I toxin-antitoxin system; Region: Ldr_toxin; pfam13940 1134782008565 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1134782008566 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1134782008567 hypothetical protein; Provisional; Region: PRK10941 1134782008568 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1134782008569 hypothetical protein; Provisional; Region: PRK10278 1134782008570 HemK family putative methylases; Region: hemK_fam; TIGR00536 1134782008571 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782008572 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1134782008573 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1134782008574 RF-1 domain; Region: RF-1; pfam00472 1134782008575 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1134782008576 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1134782008577 tRNA; other site 1134782008578 putative tRNA binding site [nucleotide binding]; other site 1134782008579 putative NADP binding site [chemical binding]; other site 1134782008580 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1134782008581 outer membrane lipoprotein LolB; Region: lolB; TIGR00548 1134782008582 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1134782008583 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1134782008584 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1134782008585 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1134782008586 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1134782008587 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1134782008588 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782008589 active site 1134782008590 putative transporter; Provisional; Region: PRK11660 1134782008591 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1134782008592 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1134782008593 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1134782008594 hypothetical protein; Provisional; Region: PRK10692 1134782008595 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1134782008596 putative active site [active] 1134782008597 catalytic residue [active] 1134782008598 GTP-binding protein YchF; Reviewed; Region: PRK09601 1134782008599 YchF GTPase; Region: YchF; cd01900 1134782008600 G1 box; other site 1134782008601 GTP/Mg2+ binding site [chemical binding]; other site 1134782008602 Switch I region; other site 1134782008603 G2 box; other site 1134782008604 Switch II region; other site 1134782008605 G3 box; other site 1134782008606 G4 box; other site 1134782008607 G5 box; other site 1134782008608 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1134782008609 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782008610 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782008611 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782008612 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 1134782008613 PAS domain; Region: PAS; smart00091 1134782008614 putative active site [active] 1134782008615 heme pocket [chemical binding]; other site 1134782008616 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782008617 Walker A motif; other site 1134782008618 ATP binding site [chemical binding]; other site 1134782008619 Walker B motif; other site 1134782008620 arginine finger; other site 1134782008621 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782008622 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK11468 1134782008623 Dak1 domain; Region: Dak1; pfam02733 1134782008624 dihydroxyacetone kinase subunit DhaL; Provisional; Region: PRK10005 1134782008625 dihydroxyacetone kinase subunit M; Provisional; Region: PRK11377 1134782008626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3412 1134782008627 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782008628 dimerization domain swap beta strand [polypeptide binding]; other site 1134782008629 regulatory protein interface [polypeptide binding]; other site 1134782008630 active site 1134782008631 regulatory phosphorylation site [posttranslational modification]; other site 1134782008632 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1134782008633 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782008634 trehalase; Provisional; Region: treA; PRK13271 1134782008635 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 1134782008636 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1134782008637 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 1134782008638 Flagellar regulator YcgR; Region: YcgR; pfam07317 1134782008639 PilZ domain; Region: PilZ; pfam07238 1134782008640 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 1134782008641 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782008642 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782008643 catalytic residue [active] 1134782008644 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 1134782008645 dimer interface [polypeptide binding]; other site 1134782008646 catalytic triad [active] 1134782008647 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]; Region: COG3263 1134782008648 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1134782008649 TrkA-C domain; Region: TrkA_C; pfam02080 1134782008650 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782008651 alanine racemase; Reviewed; Region: dadX; PRK03646 1134782008652 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1134782008653 active site 1134782008654 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782008655 substrate binding site [chemical binding]; other site 1134782008656 catalytic residues [active] 1134782008657 dimer interface [polypeptide binding]; other site 1134782008658 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1134782008659 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782008660 SpoVR family protein; Provisional; Region: PRK11767 1134782008661 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1134782008662 fatty acid metabolism regulator; Provisional; Region: PRK04984 1134782008663 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782008664 DNA-binding site [nucleotide binding]; DNA binding site 1134782008665 FadR C-terminal domain; Region: FadR_C; pfam07840 1134782008666 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1134782008667 disulfide bond formation protein B; Provisional; Region: PRK01749 1134782008668 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 1134782008669 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1134782008670 active site 1134782008671 DNA binding site [nucleotide binding] 1134782008672 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1134782008673 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1134782008674 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782008675 Catalytic site [active] 1134782008676 potential frameshift: common BLAST hit: gi|15830931|ref|NP_309704.1| hemolysin E 1134782008677 Haemolysin E (HlyE); Region: HlyE; cl11627 1134782008678 hypothetical protein; Provisional; Region: PRK05170 1134782008679 hypothetical protein; Provisional; Region: PRK10691 1134782008680 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1134782008681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 1134782008682 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1134782008683 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1134782008684 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1134782008685 septum formation inhibitor; Reviewed; Region: minC; PRK03511 1134782008686 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1134782008687 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1134782008688 cell division inhibitor MinD; Provisional; Region: PRK10818 1134782008689 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1134782008690 Switch I; other site 1134782008691 Switch II; other site 1134782008692 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1134782008693 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782008694 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782008695 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782008696 Autotransporter beta-domain; Region: Autotransporter; smart00869 1134782008697 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 1134782008698 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1134782008699 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782008700 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1134782008701 Biofilm development protein YmgB/AriR; Region: YmgB; pfam10798 1134782008702 Sensors of blue-light using FAD; Region: BLUF; smart01034 1134782008703 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782008704 transcriptional regulator MirA; Provisional; Region: PRK15043 1134782008705 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 1134782008706 DNA binding residues [nucleotide binding] 1134782008707 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 1134782008708 anti-adapter protein IraM; Provisional; Region: PRK09919 1134782008709 isocitrate dehydrogenase; Validated; Region: PRK07362 1134782008710 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1134782008711 23S rRNA pseudouridine synthase E; Provisional; Region: PRK11394 1134782008712 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 1134782008713 probable active site [active] 1134782008714 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1134782008715 nudix motif; other site 1134782008716 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1134782008717 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 1134782008718 putative lysogenization regulator; Reviewed; Region: PRK00218 1134782008719 adenylosuccinate lyase; Provisional; Region: PRK09285 1134782008720 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1134782008721 tetramer interface [polypeptide binding]; other site 1134782008722 active site 1134782008723 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1134782008724 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782008725 active site 1134782008726 phosphorylation site [posttranslational modification] 1134782008727 intermolecular recognition site; other site 1134782008728 dimerization interface [polypeptide binding]; other site 1134782008729 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782008730 DNA binding site [nucleotide binding] 1134782008731 sensor protein PhoQ; Provisional; Region: PRK10815 1134782008732 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 1134782008733 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1134782008734 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 1134782008735 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782008736 ATP binding site [chemical binding]; other site 1134782008737 Mg2+ binding site [ion binding]; other site 1134782008738 G-X-G motif; other site 1134782008739 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1134782008740 Cupin-like domain; Region: Cupin_8; pfam13621 1134782008741 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1134782008742 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1134782008743 metal binding site [ion binding]; metal-binding site 1134782008744 dimer interface [polypeptide binding]; other site 1134782008745 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1134782008746 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782008747 Walker A/P-loop; other site 1134782008748 ATP binding site [chemical binding]; other site 1134782008749 Q-loop/lid; other site 1134782008750 ABC transporter signature motif; other site 1134782008751 Walker B; other site 1134782008752 D-loop; other site 1134782008753 H-loop/switch region; other site 1134782008754 TOBE domain; Region: TOBE_2; pfam08402 1134782008755 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1134782008756 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008757 dimer interface [polypeptide binding]; other site 1134782008758 conserved gate region; other site 1134782008759 putative PBP binding loops; other site 1134782008760 ABC-ATPase subunit interface; other site 1134782008761 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1134782008762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782008763 dimer interface [polypeptide binding]; other site 1134782008764 conserved gate region; other site 1134782008765 putative PBP binding loops; other site 1134782008766 ABC-ATPase subunit interface; other site 1134782008767 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1134782008768 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1134782008769 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 1134782008770 Repair protein; Region: Repair_PSII; cl01535 1134782008771 NAD-dependent deacetylase; Provisional; Region: PRK00481 1134782008772 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1134782008773 NAD+ binding site [chemical binding]; other site 1134782008774 substrate binding site [chemical binding]; other site 1134782008775 Zn binding site [ion binding]; other site 1134782008776 fructokinase; Reviewed; Region: PRK09557 1134782008777 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782008778 nucleotide binding site [chemical binding]; other site 1134782008779 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1134782008780 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1134782008781 FtsX-like permease family; Region: FtsX; pfam02687 1134782008782 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 1134782008783 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1134782008784 Walker A/P-loop; other site 1134782008785 ATP binding site [chemical binding]; other site 1134782008786 Q-loop/lid; other site 1134782008787 ABC transporter signature motif; other site 1134782008788 Walker B; other site 1134782008789 D-loop; other site 1134782008790 H-loop/switch region; other site 1134782008791 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1134782008792 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1134782008793 FtsX-like permease family; Region: FtsX; pfam02687 1134782008794 Predicted membrane protein [Function unknown]; Region: COG4763 1134782008795 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1134782008796 transcription-repair coupling factor; Provisional; Region: PRK10689 1134782008797 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1134782008798 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782008799 ATP binding site [chemical binding]; other site 1134782008800 putative Mg++ binding site [ion binding]; other site 1134782008801 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782008802 nucleotide binding region [chemical binding]; other site 1134782008803 ATP-binding site [chemical binding]; other site 1134782008804 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1134782008805 L,D-transpeptidase; Provisional; Region: PRK10260 1134782008806 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782008807 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782008808 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782008809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1134782008810 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782008811 hypothetical protein; Provisional; Region: PRK11280 1134782008812 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1134782008813 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782008814 hypothetical protein; Provisional; Region: PRK04940 1134782008815 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1134782008816 beta-hexosaminidase; Provisional; Region: PRK05337 1134782008817 thiamine kinase; Region: ycfN_thiK; TIGR02721 1134782008818 active site 1134782008819 substrate binding site [chemical binding]; other site 1134782008820 ATP binding site [chemical binding]; other site 1134782008821 thiamine kinase; Provisional; Region: thiK; PRK10271 1134782008822 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 1134782008823 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1134782008824 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1134782008825 putative dimer interface [polypeptide binding]; other site 1134782008826 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1134782008827 nucleotide binding site/active site [active] 1134782008828 HIT family signature motif; other site 1134782008829 catalytic residue [active] 1134782008830 ferric-rhodotorulic acid outer membrane transporter; Provisional; Region: PRK10003 1134782008831 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782008832 N-terminal plug; other site 1134782008833 ligand-binding site [chemical binding]; other site 1134782008834 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 1134782008835 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782008836 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782008837 active site turn [active] 1134782008838 phosphorylation site [posttranslational modification] 1134782008839 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1134782008840 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1134782008841 active site 1134782008842 DNA polymerase III subunit delta'; Validated; Region: PRK07993 1134782008843 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1134782008844 thymidylate kinase; Validated; Region: tmk; PRK00698 1134782008845 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1134782008846 TMP-binding site; other site 1134782008847 ATP-binding site [chemical binding]; other site 1134782008848 conserved hypothetical protein, YceG family; Region: TIGR00247 1134782008849 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1134782008850 dimerization interface [polypeptide binding]; other site 1134782008851 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1134782008852 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1134782008853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782008854 catalytic residue [active] 1134782008855 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1134782008856 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1134782008857 dimer interface [polypeptide binding]; other site 1134782008858 active site 1134782008859 acyl carrier protein; Provisional; Region: acpP; PRK00982 1134782008860 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1134782008861 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1134782008862 NAD(P) binding site [chemical binding]; other site 1134782008863 homotetramer interface [polypeptide binding]; other site 1134782008864 homodimer interface [polypeptide binding]; other site 1134782008865 active site 1134782008866 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1134782008867 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1134782008868 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1134782008869 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1134782008870 dimer interface [polypeptide binding]; other site 1134782008871 active site 1134782008872 CoA binding pocket [chemical binding]; other site 1134782008873 putative phosphate acyltransferase; Provisional; Region: PRK05331 1134782008874 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1134782008875 hypothetical protein; Provisional; Region: PRK11193 1134782008876 Maf-like protein; Region: Maf; pfam02545 1134782008877 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1134782008878 active site 1134782008879 dimer interface [polypeptide binding]; other site 1134782008880 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1134782008881 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782008882 RNA binding surface [nucleotide binding]; other site 1134782008883 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1134782008884 active site 1134782008885 Protein of unknown function (DUF2655); Region: DUF2655; pfam10848 1134782008886 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1134782008887 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1134782008888 homodimer interface [polypeptide binding]; other site 1134782008889 oligonucleotide binding site [chemical binding]; other site 1134782008890 Polyribonucleotide phosphorylase C terminal; Region: PNPase_C; pfam12111 1134782008891 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 1134782008892 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1134782008893 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1134782008894 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1134782008895 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 1134782008896 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1134782008897 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1134782008898 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1134782008899 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1134782008900 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1134782008901 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1134782008902 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1134782008903 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1134782008904 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1134782008905 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1134782008906 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 1134782008907 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1134782008908 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1134782008909 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1134782008910 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1134782008911 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1134782008912 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1134782008913 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1134782008914 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1134782008915 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1134782008916 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1134782008917 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1134782008918 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1134782008919 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1134782008920 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1134782008921 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1134782008922 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1134782008923 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1134782008924 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 1134782008925 flagella synthesis chaperone protein FlgN; Provisional; Region: PRK15459 1134782008926 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1134782008927 MviN-like protein; Region: MVIN; pfam03023 1134782008928 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1134782008929 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1134782008930 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1134782008931 hypothetical protein; Provisional; Region: PRK11239 1134782008932 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1134782008933 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 1134782008934 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1134782008935 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1134782008936 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782008937 putative substrate translocation pore; other site 1134782008938 glutaredoxin 2; Provisional; Region: PRK10387 1134782008939 GST_N family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD, compared with other GRXs which are 9-12kD in size. GRX2 adopts a GST fold containing an N-terminal...; Region: GST_N_GRX2; cd03037 1134782008940 C-terminal domain interface [polypeptide binding]; other site 1134782008941 GSH binding site (G-site) [chemical binding]; other site 1134782008942 catalytic residues [active] 1134782008943 putative dimer interface [polypeptide binding]; other site 1134782008944 C-terminal, alpha helical domain of Glutaredoxin 2; Region: GST_C_GRX2; cd03199 1134782008945 N-terminal domain interface [polypeptide binding]; other site 1134782008946 lipoprotein; Provisional; Region: PRK10598 1134782008947 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1134782008948 active site 1134782008949 substrate binding pocket [chemical binding]; other site 1134782008950 dimer interface [polypeptide binding]; other site 1134782008951 DNA damage-inducible protein I; Provisional; Region: PRK10597 1134782008952 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 1134782008953 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1134782008954 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1134782008955 Protein of unknown function (DUF2770); Region: DUF2770; pfam10968 1134782008956 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1134782008957 hypothetical protein; Provisional; Region: PRK03757 1134782008958 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1134782008959 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1134782008960 active site residue [active] 1134782008961 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1134782008962 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1134782008963 putative acyl-acceptor binding pocket; other site 1134782008964 drug efflux system protein MdtG; Provisional; Region: PRK09874 1134782008965 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782008966 putative substrate translocation pore; other site 1134782008967 secY/secA suppressor protein; Provisional; Region: PRK11467 1134782008968 lipoprotein; Provisional; Region: PRK10175 1134782008969 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1134782008970 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1134782008971 Ligand binding site; other site 1134782008972 DXD motif; other site 1134782008973 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1134782008974 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; pfam04349 1134782008975 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 1134782008976 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1134782008977 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1134782008978 PLD-like domain; Region: PLDc_2; pfam13091 1134782008979 putative active site [active] 1134782008980 catalytic site [active] 1134782008981 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1134782008982 PLD-like domain; Region: PLDc_2; pfam13091 1134782008983 putative active site [active] 1134782008984 catalytic site [active] 1134782008985 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1134782008986 putative ADP-ribose binding site [chemical binding]; other site 1134782008987 putative active site [active] 1134782008988 curli assembly protein CsgC; Provisional; Region: csgC; PRK10102 1134782008989 major curlin subunit; Provisional; Region: csgA; PRK10051 1134782008990 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1134782008991 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1134782008992 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1134782008993 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1134782008994 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1134782008995 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 1134782008996 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782008997 DNA binding residues [nucleotide binding] 1134782008998 dimerization interface [polypeptide binding]; other site 1134782008999 curli assembly protein CsgE; Provisional; Region: PRK10386 1134782009000 curli assembly protein CsgF; Provisional; Region: PRK10050 1134782009001 curli production assembly/transport protein CsgG; Provisional; Region: PRK15184 1134782009002 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1134782009003 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 1134782009004 putative hydrolase; Validated; Region: PRK09248 1134782009005 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1134782009006 active site 1134782009007 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1134782009008 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1134782009009 putative ligand binding site [chemical binding]; other site 1134782009010 NAD binding site [chemical binding]; other site 1134782009011 dimerization interface [polypeptide binding]; other site 1134782009012 catalytic site [active] 1134782009013 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1134782009014 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 1134782009015 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 1134782009016 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 1134782009017 Protein of unknown function (DUF987); Region: DUF987; pfam06174 1134782009018 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1134782009019 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782009020 MPN+ (JAMM) motif; other site 1134782009021 Zinc-binding site [ion binding]; other site 1134782009022 Antirestriction protein; Region: Antirestrict; pfam03230 1134782009023 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1134782009024 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782009025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782009026 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782009027 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782009028 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782009029 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782009030 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782009031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782009032 Transposase; Region: HTH_Tnp_1; pfam01527 1134782009033 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1134782009034 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1134782009035 nucleophile elbow; other site 1134782009036 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1134782009037 YjcZ-like protein; Region: YjcZ; pfam13990 1134782009038 hypothetical protein; Provisional; Region: PRK09866 1134782009039 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782009040 G1 box; other site 1134782009041 GTP/Mg2+ binding site [chemical binding]; other site 1134782009042 G2 box; other site 1134782009043 Switch I region; other site 1134782009044 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782009045 G3 box; other site 1134782009046 Switch II region; other site 1134782009047 GTP/Mg2+ binding site [chemical binding]; other site 1134782009048 G4 box; other site 1134782009049 G5 box; other site 1134782009050 potential frameshift: common BLAST hit: gi|260858461|ref|YP_003232352.1| adhesin 1134782009051 potential frameshift: common BLAST hit: gi|260858461|ref|YP_003232352.1| adhesin 1134782009052 Predicted GTPase [General function prediction only]; Region: COG3596 1134782009053 YfjP GTPase; Region: YfjP; cd11383 1134782009054 G1 box; other site 1134782009055 GTP/Mg2+ binding site [chemical binding]; other site 1134782009056 Switch I region; other site 1134782009057 G2 box; other site 1134782009058 Switch II region; other site 1134782009059 G3 box; other site 1134782009060 G4 box; other site 1134782009061 G5 box; other site 1134782009062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782009063 Transposase; Region: HTH_Tnp_1; pfam01527 1134782009064 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009065 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009066 putative metal binding site [ion binding]; other site 1134782009067 Bacterial stress protein; Region: TerD; pfam02342 1134782009068 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009069 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009070 putative metal binding site [ion binding]; other site 1134782009071 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009072 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009073 putative metal binding site [ion binding]; other site 1134782009074 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1134782009075 tellurite resistance protein terB; Region: terB; cd07176 1134782009076 putative metal binding site [ion binding]; other site 1134782009077 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009078 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009079 putative metal binding site [ion binding]; other site 1134782009080 Uncharacterized protein involved in stress response [General function prediction only]; Region: COG4110 1134782009081 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009082 putative metal binding site [ion binding]; other site 1134782009083 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009084 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009085 putative metal binding site [ion binding]; other site 1134782009086 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 1134782009087 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1134782009088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782009089 active site 1134782009090 Protein of unknown function (DUF3706); Region: DUF3706; pfam12500 1134782009091 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 1134782009092 Protein of unknown function (DUF2983); Region: DUF2983; pfam11202 1134782009093 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1134782009094 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 1134782009095 Predicted transcriptional regulator [Transcription]; Region: COG2378 1134782009096 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 1134782009097 metal ion-dependent adhesion site (MIDAS); other site 1134782009098 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 1134782009099 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 1134782009100 putative metal binding site [ion binding]; other site 1134782009101 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 1134782009102 metal ion-dependent adhesion site (MIDAS); other site 1134782009103 VWA subfamily: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subfamily; cd01464 1134782009104 metal ion-dependent adhesion site (MIDAS); other site 1134782009105 Protein phosphatase 2C; Region: PP2C_2; pfam13672 1134782009106 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1134782009107 substrate binding site [chemical binding]; other site 1134782009108 activation loop (A-loop); other site 1134782009109 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1134782009110 Helix-turn-helix domain; Region: HTH_38; pfam13936 1134782009111 Integrase core domain; Region: rve; pfam00665 1134782009112 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1134782009113 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 1134782009114 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1134782009115 cell density-dependent motility repressor; Provisional; Region: PRK10082 1134782009116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782009117 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1134782009118 dimerization interface [polypeptide binding]; other site 1134782009119 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1134782009120 aspartate racemase; Region: asp_race; TIGR00035 1134782009121 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1134782009122 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1134782009123 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1134782009124 Integrase core domain; Region: rve; pfam00665 1134782009125 Integrase core domain; Region: rve_3; pfam13683 1134782009126 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782009127 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782009128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782009129 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782009130 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782009131 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1134782009132 Active Sites [active] 1134782009133 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1134782009134 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1134782009135 Part of AAA domain; Region: AAA_19; pfam13245 1134782009136 AAA domain; Region: AAA_12; pfam13087 1134782009137 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1134782009138 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1134782009139 CAAX protease self-immunity; Region: Abi; pfam02517 1134782009140 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1134782009141 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 1134782009142 putative active site [active] 1134782009143 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782009144 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1134782009145 Walker A/P-loop; other site 1134782009146 ATP binding site [chemical binding]; other site 1134782009147 Q-loop/lid; other site 1134782009148 ABC transporter signature motif; other site 1134782009149 Walker B; other site 1134782009150 D-loop; other site 1134782009151 H-loop/switch region; other site 1134782009152 HlyD family secretion protein; Region: HlyD; pfam00529 1134782009153 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782009154 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782009155 RTX toxin acyltransferase family; Region: HlyC; pfam02794 1134782009156 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782009157 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782009158 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782009159 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1134782009160 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1134782009161 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1134782009162 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 1134782009163 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 1134782009164 homodimer interface [polypeptide binding]; other site 1134782009165 TDP-binding site; other site 1134782009166 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1134782009167 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 1134782009168 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 1134782009169 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782009170 N-terminal plug; other site 1134782009171 ligand-binding site [chemical binding]; other site 1134782009172 Transposase; Region: HTH_Tnp_1; pfam01527 1134782009173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782009174 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782009175 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782009176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4951 1134782009177 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1134782009178 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782009179 ATP binding site [chemical binding]; other site 1134782009180 putative Mg++ binding site [ion binding]; other site 1134782009181 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782009182 nucleotide binding region [chemical binding]; other site 1134782009183 ATP-binding site [chemical binding]; other site 1134782009184 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1134782009185 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1134782009186 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1134782009187 integrase; Provisional; Region: PRK09692 1134782009188 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782009189 active site 1134782009190 Int/Topo IB signature motif; other site 1134782009191 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1134782009192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782009193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782009194 metal binding site [ion binding]; metal-binding site 1134782009195 active site 1134782009196 I-site; other site 1134782009197 outer membrane protein PgaA; Provisional; Region: pgaA; PRK10049 1134782009198 outer membrane N-deacetylase; Provisional; Region: pgaB; PRK14582 1134782009199 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 1134782009200 putative active site [active] 1134782009201 putative metal binding site [ion binding]; other site 1134782009202 N-glycosyltransferase; Provisional; Region: PRK11204 1134782009203 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1134782009204 DXD motif; other site 1134782009205 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1134782009206 putative PGA biosynthesis protein; Provisional; Region: pgaD; PRK14585 1134782009207 hypothetical protein; Provisional; Region: PRK10536 1134782009208 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1134782009209 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1134782009210 Predicted iron-dependent peroxidase [Inorganic ion transport and metabolism]; Region: COG2837 1134782009211 inactive ferrous ion transporter periplasmic protein EfeO; Provisional; Region: PRK10378 1134782009212 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1134782009213 Imelysin; Region: Peptidase_M75; pfam09375 1134782009214 FTR1 family protein; Region: TIGR00145 1134782009215 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1134782009216 Na binding site [ion binding]; other site 1134782009217 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1134782009218 Predicted transcriptional regulator [Transcription]; Region: COG3905 1134782009219 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1134782009220 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1134782009221 Glutamate binding site [chemical binding]; other site 1134782009222 NAD binding site [chemical binding]; other site 1134782009223 catalytic residues [active] 1134782009224 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 1134782009225 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782009226 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1134782009227 pyrimidine utilization protein A; Region: RutA; TIGR03612 1134782009228 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1134782009229 active site 1134782009230 dimer interface [polypeptide binding]; other site 1134782009231 non-prolyl cis peptide bond; other site 1134782009232 insertion regions; other site 1134782009233 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1134782009234 Isochorismatase family; Region: Isochorismatase; pfam00857 1134782009235 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1134782009236 catalytic triad [active] 1134782009237 conserved cis-peptide bond; other site 1134782009238 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1134782009239 homotrimer interaction site [polypeptide binding]; other site 1134782009240 putative active site [active] 1134782009241 pyrimidine utilization protein D; Region: RutD; TIGR03611 1134782009242 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 1134782009243 putative FMN binding site [chemical binding]; other site 1134782009244 pyrimidine utilization flavin reductase protein F; Region: RutF; TIGR03615 1134782009245 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1134782009246 General stress protein [General function prediction only]; Region: GsiB; COG3729 1134782009247 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 1134782009248 Hok/gef family; Region: HOK_GEF; pfam01848 1134782009249 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1134782009250 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782009251 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782009252 Phage tail fibre adhesin Gp38; Region: GP38; pfam05268 1134782009253 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 1134782009254 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1134782009255 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 1134782009256 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782009257 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782009258 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1134782009259 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 1134782009260 large terminase protein; Provisional; Region: 17; PHA02533 1134782009261 large terminase protein; Provisional; Region: 17; PHA02533 1134782009262 Bor protein; Region: Lambda_Bor; pfam06291 1134782009263 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1134782009264 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 1134782009265 ORF11CD3 domain; Region: ORF11CD3; pfam10549 1134782009266 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1134782009267 catalytic residues [active] 1134782009268 Lysis protein S; Region: Lysis_S; pfam04971 1134782009269 Protein of unknown function (DUF826); Region: DUF826; pfam05696 1134782009270 Protein of unknown function (DUF1378); Region: DUF1378; pfam07125 1134782009271 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 1134782009272 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782009273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1134782009274 Shiga-like toxin beta subunit; Region: SLT_beta; pfam02258 1134782009275 Ribosome inactivating protein; Region: RIP; pfam00161 1134782009276 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1134782009277 Phage NinH protein; Region: Phage_NinH; pfam06322 1134782009278 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 1134782009279 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 1134782009280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1134782009281 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 1134782009282 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1134782009283 active site 1134782009284 metal binding site [ion binding]; metal-binding site 1134782009285 interdomain interaction site; other site 1134782009286 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1134782009287 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782009288 ATP binding site [chemical binding]; other site 1134782009289 putative Mg++ binding site [ion binding]; other site 1134782009290 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782009291 nucleotide binding region [chemical binding]; other site 1134782009292 ATP-binding site [chemical binding]; other site 1134782009293 Cro; Region: Cro; pfam09048 1134782009294 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782009295 non-specific DNA binding site [nucleotide binding]; other site 1134782009296 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1134782009297 salt bridge; other site 1134782009298 sequence-specific DNA binding site [nucleotide binding]; other site 1134782009299 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782009300 Catalytic site [active] 1134782009301 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1134782009302 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 1134782009303 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 1134782009304 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1134782009305 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 1134782009306 RecT family; Region: RecT; pfam03837 1134782009307 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1134782009308 Uncharacterized conserved protein (DUF2303); Region: DUF2303; pfam10065 1134782009309 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782009310 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782009311 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1134782009312 AntA/AntB antirepressor; Region: AntA; pfam08346 1134782009313 Phage anti-repressor protein [Transcription]; Region: COG3561 1134782009314 MT-A70; Region: MT-A70; cl01947 1134782009315 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 1134782009316 Protein of unknown function (DUF1627); Region: DUF1627; pfam07789 1134782009317 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1134782009318 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 1134782009319 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 1134782009320 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1134782009321 phiCTX phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various phage and bacterial integrases, including those similar to phage integrases: Bordetella and...; Region: INT_phiCTX_C; cd01191 1134782009322 Int/Topo IB signature motif; other site 1134782009323 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1134782009324 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1134782009325 hypothetical protein; Provisional; Region: PRK10174 1134782009326 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1134782009327 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1134782009328 catalytic core [active] 1134782009329 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1134782009330 hypothetical protein; Provisional; Region: PRK09784 1134782009331 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 1134782009332 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1134782009333 HSP70 interaction site [polypeptide binding]; other site 1134782009334 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1134782009335 substrate binding site [polypeptide binding]; other site 1134782009336 dimer interface [polypeptide binding]; other site 1134782009337 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 1134782009338 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 1134782009339 chaperone protein TorD; Validated; Region: torD; PRK04976 1134782009340 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1134782009341 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1134782009342 molybdopterin cofactor binding site [chemical binding]; other site 1134782009343 substrate binding site [chemical binding]; other site 1134782009344 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1134782009345 molybdopterin cofactor binding site; other site 1134782009346 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 1134782009347 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1134782009348 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1134782009349 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782009350 active site 1134782009351 phosphorylation site [posttranslational modification] 1134782009352 intermolecular recognition site; other site 1134782009353 dimerization interface [polypeptide binding]; other site 1134782009354 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782009355 DNA binding site [nucleotide binding] 1134782009356 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 1134782009357 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 1134782009358 putative ligand binding site [chemical binding]; other site 1134782009359 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 1134782009360 HAMP domain; Region: HAMP; pfam00672 1134782009361 dimerization interface [polypeptide binding]; other site 1134782009362 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782009363 dimer interface [polypeptide binding]; other site 1134782009364 phosphorylation site [posttranslational modification] 1134782009365 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782009366 ATP binding site [chemical binding]; other site 1134782009367 Mg2+ binding site [ion binding]; other site 1134782009368 G-X-G motif; other site 1134782009369 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782009370 active site 1134782009371 phosphorylation site [posttranslational modification] 1134782009372 intermolecular recognition site; other site 1134782009373 dimerization interface [polypeptide binding]; other site 1134782009374 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1134782009375 putative binding surface; other site 1134782009376 active site 1134782009377 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1134782009378 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1134782009379 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 1134782009380 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782009381 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 1134782009382 GnsA/GnsB family; Region: GnsAB; pfam08178 1134782009383 cold shock gene; Provisional; Region: PRK09891 1134782009384 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782009385 DNA-binding site [nucleotide binding]; DNA binding site 1134782009386 RNA-binding motif; other site 1134782009387 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782009388 DNA-binding site [nucleotide binding]; DNA binding site 1134782009389 RNA-binding motif; other site 1134782009390 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1134782009391 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1134782009392 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1134782009393 polysaccharide export protein Wza; Provisional; Region: PRK15078 1134782009394 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1134782009395 SLBB domain; Region: SLBB; pfam10531 1134782009396 SLBB domain; Region: SLBB; pfam10531 1134782009397 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1134782009398 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1134782009399 active site 1134782009400 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 1134782009401 Chain length determinant protein; Region: Wzz; pfam02706 1134782009402 Chain length determinant protein; Region: Wzz; cl15801 1134782009403 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1134782009404 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1134782009405 Nucleotide binding site [chemical binding]; other site 1134782009406 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1134782009407 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1134782009408 catalytic core [active] 1134782009409 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1134782009410 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1134782009411 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 1134782009412 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1134782009413 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 1134782009414 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1134782009415 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 1134782009416 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 1134782009417 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 1134782009418 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1134782009419 putative substrate-binding site; other site 1134782009420 nickel binding site [ion binding]; other site 1134782009421 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 1134782009422 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1134782009423 hydrogenase 1 large subunit; Provisional; Region: PRK10170 1134782009424 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1134782009425 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1134782009426 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1134782009427 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1134782009428 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1134782009429 YccA-like proteins; Region: YccA_like; cd10433 1134782009430 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1134782009431 sulfur transfer protein TusE; Provisional; Region: PRK11508 1134782009432 Acylphosphatase; Region: Acylphosphatase; cl00551 1134782009433 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1134782009434 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1134782009435 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1134782009436 putative RNA binding site [nucleotide binding]; other site 1134782009437 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782009438 S-adenosylmethionine binding site [chemical binding]; other site 1134782009439 heat shock protein HspQ; Provisional; Region: PRK14129 1134782009440 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1134782009441 hypothetical protein; Provisional; Region: PRK03641 1134782009442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3110 1134782009443 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1134782009444 active site 1134782009445 dimer interfaces [polypeptide binding]; other site 1134782009446 catalytic residues [active] 1134782009447 DNA helicase IV; Provisional; Region: helD; PRK11054 1134782009448 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1134782009449 Part of AAA domain; Region: AAA_19; pfam13245 1134782009450 Family description; Region: UvrD_C_2; pfam13538 1134782009451 Predicted membrane protein [Function unknown]; Region: COG3304 1134782009452 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1134782009453 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1134782009454 TIGR01666 family membrane protein; Region: YCCS 1134782009455 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1134782009456 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782009457 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 1134782009458 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1134782009459 cell division inhibitor SulA; Region: sula; TIGR00623 1134782009460 outer membrane protein A; Reviewed; Region: PRK10808 1134782009461 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1134782009462 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782009463 ligand binding site [chemical binding]; other site 1134782009464 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1134782009465 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1134782009466 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1134782009467 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1134782009468 active site 1 [active] 1134782009469 dimer interface [polypeptide binding]; other site 1134782009470 active site 2 [active] 1134782009471 ribosome modulation factor; Provisional; Region: PRK14563 1134782009472 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1134782009473 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1134782009474 paraquat-inducible protein B; Provisional; Region: PRK10807 1134782009475 mce related protein; Region: MCE; pfam02470 1134782009476 mce related protein; Region: MCE; pfam02470 1134782009477 mce related protein; Region: MCE; pfam02470 1134782009478 DASH complex subunit Duo1; Region: DASH_Duo1; pfam08651 1134782009479 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 1134782009480 Paraquat-inducible protein A; Region: PqiA; pfam04403 1134782009481 Paraquat-inducible protein A; Region: PqiA; pfam04403 1134782009482 ABC transporter ATPase component; Reviewed; Region: PRK11147 1134782009483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782009484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782009485 Walker A/P-loop; other site 1134782009486 Walker A/P-loop; other site 1134782009487 ATP binding site [chemical binding]; other site 1134782009488 ATP binding site [chemical binding]; other site 1134782009489 Q-loop/lid; other site 1134782009490 Q-loop/lid; other site 1134782009491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782009492 ABC transporter signature motif; other site 1134782009493 Walker B; other site 1134782009494 D-loop; other site 1134782009495 ABC transporter; Region: ABC_tran_2; pfam12848 1134782009496 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782009497 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1134782009498 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1134782009499 Putative RNA methylase family UPF0020; Region: UPF0020; pfam01170 1134782009500 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782009501 S-adenosylmethionine binding site [chemical binding]; other site 1134782009502 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1134782009503 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1134782009504 MOSC domain; Region: MOSC; pfam03473 1134782009505 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782009506 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1134782009507 catalytic loop [active] 1134782009508 iron binding site [ion binding]; other site 1134782009509 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1134782009510 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1134782009511 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1134782009512 quinone interaction residues [chemical binding]; other site 1134782009513 active site 1134782009514 catalytic residues [active] 1134782009515 FMN binding site [chemical binding]; other site 1134782009516 substrate binding site [chemical binding]; other site 1134782009517 putativi pili assembly chaperone; Provisional; Region: PRK11385 1134782009518 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782009519 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782009520 Fimbrial protein; Region: Fimbrial; cl01416 1134782009521 Fimbrial protein; Region: Fimbrial; cl01416 1134782009522 Fimbrial protein; Region: Fimbrial; cl01416 1134782009523 outer membrane usher protein; Provisional; Region: PRK15193 1134782009524 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782009525 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782009526 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782009527 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1134782009528 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782009529 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782009530 Fimbrial protein; Region: Fimbrial; cl01416 1134782009531 NAD(P)H-dependent FMN reductase; Provisional; Region: PRK10569 1134782009532 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1134782009533 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782009534 substrate binding pocket [chemical binding]; other site 1134782009535 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1134782009536 membrane-bound complex binding site; other site 1134782009537 hinge residues; other site 1134782009538 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 1134782009539 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 1134782009540 active site 1134782009541 dimer interface [polypeptide binding]; other site 1134782009542 non-prolyl cis peptide bond; other site 1134782009543 insertion regions; other site 1134782009544 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1134782009545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009546 dimer interface [polypeptide binding]; other site 1134782009547 conserved gate region; other site 1134782009548 putative PBP binding loops; other site 1134782009549 ABC-ATPase subunit interface; other site 1134782009550 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 1134782009551 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1134782009552 Walker A/P-loop; other site 1134782009553 ATP binding site [chemical binding]; other site 1134782009554 Q-loop/lid; other site 1134782009555 ABC transporter signature motif; other site 1134782009556 Walker B; other site 1134782009557 D-loop; other site 1134782009558 H-loop/switch region; other site 1134782009559 aminopeptidase N; Provisional; Region: pepN; PRK14015 1134782009560 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1134782009561 active site 1134782009562 Zn binding site [ion binding]; other site 1134782009563 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1134782009564 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1134782009565 active site 1134782009566 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1134782009567 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1134782009568 putative dimer interface [polypeptide binding]; other site 1134782009569 putative anticodon binding site; other site 1134782009570 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1134782009571 homodimer interface [polypeptide binding]; other site 1134782009572 motif 1; other site 1134782009573 motif 2; other site 1134782009574 active site 1134782009575 motif 3; other site 1134782009576 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782009577 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1134782009578 trimer interface [polypeptide binding]; other site 1134782009579 eyelet of channel; other site 1134782009580 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1134782009581 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782009582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782009583 homodimer interface [polypeptide binding]; other site 1134782009584 catalytic residue [active] 1134782009585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782009586 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782009587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782009588 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1134782009589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1134782009590 Peptidase M15; Region: Peptidase_M15_3; cl01194 1134782009591 murein L,D-transpeptidase; Provisional; Region: PRK10594 1134782009592 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1134782009593 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782009594 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782009595 Uncharacterized protein involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: MukB; COG3096 1134782009596 MukB N-terminal; Region: MukB; pfam04310 1134782009597 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1134782009598 condesin subunit E; Provisional; Region: PRK05256 1134782009599 condesin subunit F; Provisional; Region: PRK05260 1134782009600 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1134782009601 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782009602 S-adenosylmethionine binding site [chemical binding]; other site 1134782009603 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1134782009604 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1134782009605 putative active site [active] 1134782009606 hypothetical protein; Provisional; Region: PRK10593 1134782009607 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1134782009608 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1134782009609 Ligand binding site; other site 1134782009610 oligomer interface; other site 1134782009611 hypothetical protein; Provisional; Region: PRK11827 1134782009612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 1134782009613 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 1134782009614 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1134782009615 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1134782009616 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1134782009617 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782009618 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1134782009619 Walker A/P-loop; other site 1134782009620 ATP binding site [chemical binding]; other site 1134782009621 Q-loop/lid; other site 1134782009622 ABC transporter signature motif; other site 1134782009623 Walker B; other site 1134782009624 D-loop; other site 1134782009625 H-loop/switch region; other site 1134782009626 ComEC family competence protein; Provisional; Region: PRK11539 1134782009627 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1134782009628 ComEC/Rec2-related protein; Region: ComEC_N-term; TIGR00360 1134782009629 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1134782009630 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1134782009631 IHF dimer interface [polypeptide binding]; other site 1134782009632 IHF - DNA interface [nucleotide binding]; other site 1134782009633 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1134782009634 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1134782009635 RNA binding site [nucleotide binding]; other site 1134782009636 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1134782009637 RNA binding site [nucleotide binding]; other site 1134782009638 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1134782009639 RNA binding site [nucleotide binding]; other site 1134782009640 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1134782009641 RNA binding site [nucleotide binding]; other site 1134782009642 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1134782009643 RNA binding site [nucleotide binding]; other site 1134782009644 cytidylate kinase; Provisional; Region: cmk; PRK00023 1134782009645 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1134782009646 CMP-binding site; other site 1134782009647 The sites determining sugar specificity; other site 1134782009648 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 1134782009649 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1134782009650 Enol pyruvate transferases family includes EPSP synthases and UDP-N-acetylglucosamine enolpyruvyl transferase. Both enzymes catalyze the reaction of enolpyruvyl transfer; Region: EPT-like; cd01554 1134782009651 hinge; other site 1134782009652 active site 1134782009653 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1134782009654 homodimer interface [polypeptide binding]; other site 1134782009655 substrate-cofactor binding pocket; other site 1134782009656 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782009657 catalytic residue [active] 1134782009658 Predicted membrane protein [Function unknown]; Region: COG2323 1134782009659 uncharacterized domain; Region: TIGR00702 1134782009660 YcaO-like family; Region: YcaO; pfam02624 1134782009661 formate transporter; Provisional; Region: PRK10805 1134782009662 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1134782009663 Pyruvate formate lyase 1; Region: PFL1; cd01678 1134782009664 coenzyme A binding site [chemical binding]; other site 1134782009665 active site 1134782009666 catalytic residues [active] 1134782009667 glycine loop; other site 1134782009668 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1134782009669 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782009670 FeS/SAM binding site; other site 1134782009671 hypothetical protein; Provisional; Region: PRK09739 1134782009672 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1134782009673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782009674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782009675 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1134782009676 putative effector binding pocket; other site 1134782009677 putative dimerization interface [polypeptide binding]; other site 1134782009678 Amino acid permease; Region: AA_permease_2; pfam13520 1134782009679 putative MFS family transporter protein; Provisional; Region: PRK03633 1134782009680 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782009681 putative substrate translocation pore; other site 1134782009682 Isochorismatase family; Region: Isochorismatase; pfam00857 1134782009683 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 1134782009684 catalytic triad [active] 1134782009685 dimer interface [polypeptide binding]; other site 1134782009686 conserved cis-peptide bond; other site 1134782009687 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1134782009688 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1134782009689 4Fe-4S binding domain; Region: Fer4; pfam00037 1134782009690 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 1134782009691 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1134782009692 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1134782009693 putative [Fe4-S4] binding site [ion binding]; other site 1134782009694 putative molybdopterin cofactor binding site [chemical binding]; other site 1134782009695 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1134782009696 putative molybdopterin cofactor binding site; other site 1134782009697 seryl-tRNA synthetase; Provisional; Region: PRK05431 1134782009698 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1134782009699 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1134782009700 dimer interface [polypeptide binding]; other site 1134782009701 active site 1134782009702 motif 1; other site 1134782009703 motif 2; other site 1134782009704 motif 3; other site 1134782009705 recombination factor protein RarA; Reviewed; Region: PRK13342 1134782009706 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782009707 Walker A motif; other site 1134782009708 ATP binding site [chemical binding]; other site 1134782009709 Walker B motif; other site 1134782009710 arginine finger; other site 1134782009711 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1134782009712 periplasmic chaperone LolA; Region: lolA; TIGR00547 1134782009713 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1134782009714 DNA translocase FtsK; Provisional; Region: PRK10263 1134782009715 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1134782009716 DNA translocase FtsK; Provisional; Region: PRK10263 1134782009717 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1134782009718 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1134782009719 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1134782009720 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782009721 putative DNA binding site [nucleotide binding]; other site 1134782009722 putative Zn2+ binding site [ion binding]; other site 1134782009723 AsnC family; Region: AsnC_trans_reg; pfam01037 1134782009724 thioredoxin reductase; Provisional; Region: PRK10262 1134782009725 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782009726 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782009727 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1134782009728 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782009729 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782009730 Walker A/P-loop; other site 1134782009731 ATP binding site [chemical binding]; other site 1134782009732 Q-loop/lid; other site 1134782009733 ABC transporter signature motif; other site 1134782009734 Walker B; other site 1134782009735 D-loop; other site 1134782009736 H-loop/switch region; other site 1134782009737 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1134782009738 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782009739 ATP-binding cassette domain of CydCD, subfamily C; Region: ABCC_cytochrome_bd; cd03247 1134782009740 Walker A/P-loop; other site 1134782009741 ATP binding site [chemical binding]; other site 1134782009742 Q-loop/lid; other site 1134782009743 ABC transporter signature motif; other site 1134782009744 Walker B; other site 1134782009745 D-loop; other site 1134782009746 H-loop/switch region; other site 1134782009747 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1134782009748 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1134782009749 rRNA binding site [nucleotide binding]; other site 1134782009750 predicted 30S ribosome binding site; other site 1134782009751 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1134782009752 Clp amino terminal domain; Region: Clp_N; pfam02861 1134782009753 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782009754 Walker A motif; other site 1134782009755 ATP binding site [chemical binding]; other site 1134782009756 Walker B motif; other site 1134782009757 arginine finger; other site 1134782009758 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782009759 Walker A motif; other site 1134782009760 ATP binding site [chemical binding]; other site 1134782009761 Walker B motif; other site 1134782009762 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1134782009763 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1134782009764 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782009765 DNA-binding site [nucleotide binding]; DNA binding site 1134782009766 RNA-binding motif; other site 1134782009767 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 1134782009768 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1134782009769 Walker A/P-loop; other site 1134782009770 ATP binding site [chemical binding]; other site 1134782009771 Q-loop/lid; other site 1134782009772 ABC transporter signature motif; other site 1134782009773 Walker B; other site 1134782009774 D-loop; other site 1134782009775 H-loop/switch region; other site 1134782009776 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1134782009777 FtsX-like permease family; Region: FtsX; pfam02687 1134782009778 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1134782009779 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782009780 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782009781 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1134782009782 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1134782009783 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1134782009784 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1134782009785 putative active site [active] 1134782009786 putative metal-binding site [ion binding]; other site 1134782009787 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1134782009788 amphipathic channel; other site 1134782009789 Asn-Pro-Ala signature motifs; other site 1134782009790 Predicted membrane protein [Function unknown]; Region: COG2431 1134782009791 hybrid cluster protein; Provisional; Region: PRK05290 1134782009792 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782009793 ACS interaction site; other site 1134782009794 CODH interaction site; other site 1134782009795 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1134782009796 hybrid metal cluster; other site 1134782009797 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1134782009798 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1134782009799 FAD binding pocket [chemical binding]; other site 1134782009800 FAD binding motif [chemical binding]; other site 1134782009801 phosphate binding motif [ion binding]; other site 1134782009802 beta-alpha-beta structure motif; other site 1134782009803 NAD binding pocket [chemical binding]; other site 1134782009804 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782009805 catalytic loop [active] 1134782009806 iron binding site [ion binding]; other site 1134782009807 pyruvate dehydrogenase; Provisional; Region: PRK09124 1134782009808 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1134782009809 PYR/PP interface [polypeptide binding]; other site 1134782009810 dimer interface [polypeptide binding]; other site 1134782009811 tetramer interface [polypeptide binding]; other site 1134782009812 TPP binding site [chemical binding]; other site 1134782009813 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782009814 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1134782009815 TPP-binding site [chemical binding]; other site 1134782009816 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1134782009817 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1134782009818 tetramer interface [polypeptide binding]; other site 1134782009819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782009820 catalytic residue [active] 1134782009821 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1134782009822 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 1134782009823 putative NAD(P) binding site [chemical binding]; other site 1134782009824 putative active site [active] 1134782009825 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1134782009826 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1134782009827 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1134782009828 NAD(P) binding site [chemical binding]; other site 1134782009829 active site 1134782009830 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1134782009831 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1134782009832 amidase catalytic site [active] 1134782009833 Zn binding residues [ion binding]; other site 1134782009834 substrate binding site [chemical binding]; other site 1134782009835 hypothetical protein; Provisional; Region: PRK02877 1134782009836 putative lipoprotein; Provisional; Region: PRK10533 1134782009837 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1134782009838 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782009839 Walker A/P-loop; other site 1134782009840 ATP binding site [chemical binding]; other site 1134782009841 Q-loop/lid; other site 1134782009842 ABC transporter signature motif; other site 1134782009843 Walker B; other site 1134782009844 D-loop; other site 1134782009845 H-loop/switch region; other site 1134782009846 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1134782009847 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782009848 substrate binding pocket [chemical binding]; other site 1134782009849 membrane-bound complex binding site; other site 1134782009850 hinge residues; other site 1134782009851 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782009852 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009853 dimer interface [polypeptide binding]; other site 1134782009854 conserved gate region; other site 1134782009855 putative PBP binding loops; other site 1134782009856 ABC-ATPase subunit interface; other site 1134782009857 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009858 dimer interface [polypeptide binding]; other site 1134782009859 conserved gate region; other site 1134782009860 putative PBP binding loops; other site 1134782009861 ABC-ATPase subunit interface; other site 1134782009862 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1134782009863 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782009864 substrate binding pocket [chemical binding]; other site 1134782009865 membrane-bound complex binding site; other site 1134782009866 hinge residues; other site 1134782009867 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1134782009868 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782009869 S-adenosylmethionine binding site [chemical binding]; other site 1134782009870 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 1134782009871 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1134782009872 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009873 dimer interface [polypeptide binding]; other site 1134782009874 conserved gate region; other site 1134782009875 putative PBP binding loops; other site 1134782009876 ABC-ATPase subunit interface; other site 1134782009877 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1134782009878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009879 dimer interface [polypeptide binding]; other site 1134782009880 conserved gate region; other site 1134782009881 putative PBP binding loops; other site 1134782009882 ABC-ATPase subunit interface; other site 1134782009883 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 1134782009884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782009885 Walker A/P-loop; other site 1134782009886 ATP binding site [chemical binding]; other site 1134782009887 Q-loop/lid; other site 1134782009888 ABC transporter signature motif; other site 1134782009889 Walker B; other site 1134782009890 D-loop; other site 1134782009891 H-loop/switch region; other site 1134782009892 TOBE domain; Region: TOBE_2; pfam08402 1134782009893 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1134782009894 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1134782009895 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1134782009896 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1134782009897 RimK-like ATP-grasp domain; Region: RimK; pfam08443 1134782009898 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1134782009899 dimer interface [polypeptide binding]; other site 1134782009900 FMN binding site [chemical binding]; other site 1134782009901 NADPH bind site [chemical binding]; other site 1134782009902 Protein of unknown function (DUF1418); Region: DUF1418; pfam07214 1134782009903 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1134782009904 GSH binding site [chemical binding]; other site 1134782009905 catalytic residues [active] 1134782009906 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 1134782009907 putative transporter; Provisional; Region: PRK04972 1134782009908 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1134782009909 TrkA-C domain; Region: TrkA_C; pfam02080 1134782009910 TrkA-C domain; Region: TrkA_C; pfam02080 1134782009911 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1134782009912 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 1134782009913 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782009914 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1134782009915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782009916 putative substrate translocation pore; other site 1134782009917 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782009918 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 1134782009919 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782009920 active site 1134782009921 motif I; other site 1134782009922 motif II; other site 1134782009923 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782009924 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1134782009925 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1134782009926 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782009927 putative substrate translocation pore; other site 1134782009928 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1134782009929 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1134782009930 active site 1134782009931 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1134782009932 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782009933 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782009934 D-alanyl-D-alanine carboxypeptidase fraction C; Provisional; Region: PRK10001 1134782009935 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1134782009936 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1134782009937 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1134782009938 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1134782009939 putative C-terminal domain interface [polypeptide binding]; other site 1134782009940 putative GSH binding site (G-site) [chemical binding]; other site 1134782009941 putative dimer interface [polypeptide binding]; other site 1134782009942 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1134782009943 N-terminal domain interface [polypeptide binding]; other site 1134782009944 dimer interface [polypeptide binding]; other site 1134782009945 substrate binding pocket (H-site) [chemical binding]; other site 1134782009946 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1134782009947 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1134782009948 biofilm formation regulatory protein BssR; Reviewed; Region: bssR; PRK12302 1134782009949 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1134782009950 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1134782009951 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782009952 FeS/SAM binding site; other site 1134782009953 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782009954 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782009955 metal binding site [ion binding]; metal-binding site 1134782009956 active site 1134782009957 I-site; other site 1134782009958 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782009959 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 1134782009960 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1134782009961 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009962 dimer interface [polypeptide binding]; other site 1134782009963 conserved gate region; other site 1134782009964 putative PBP binding loops; other site 1134782009965 ABC-ATPase subunit interface; other site 1134782009966 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 1134782009967 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782009968 dimer interface [polypeptide binding]; other site 1134782009969 conserved gate region; other site 1134782009970 putative PBP binding loops; other site 1134782009971 ABC-ATPase subunit interface; other site 1134782009972 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 1134782009973 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 1134782009974 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 1134782009975 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782009976 Walker A/P-loop; other site 1134782009977 ATP binding site [chemical binding]; other site 1134782009978 Q-loop/lid; other site 1134782009979 ABC transporter signature motif; other site 1134782009980 Walker B; other site 1134782009981 D-loop; other site 1134782009982 H-loop/switch region; other site 1134782009983 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1134782009984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782009985 Walker A/P-loop; other site 1134782009986 ATP binding site [chemical binding]; other site 1134782009987 Q-loop/lid; other site 1134782009988 ABC transporter signature motif; other site 1134782009989 Walker B; other site 1134782009990 D-loop; other site 1134782009991 H-loop/switch region; other site 1134782009992 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1134782009993 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 1134782009994 catalytic nucleophile [active] 1134782009995 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1134782009996 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1134782009997 dimer interface [polypeptide binding]; other site 1134782009998 putative functional site; other site 1134782009999 putative MPT binding site; other site 1134782010000 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1134782010001 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1134782010002 ATP binding site [chemical binding]; other site 1134782010003 substrate interface [chemical binding]; other site 1134782010004 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1134782010005 active site 1134782010006 intersubunit interactions; other site 1134782010007 catalytic residue [active] 1134782010008 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1134782010009 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1134782010010 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1134782010011 dimer interface [polypeptide binding]; other site 1134782010012 active site 1134782010013 glycine loop; other site 1134782010014 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 1134782010015 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010016 active site 1134782010017 motif I; other site 1134782010018 motif II; other site 1134782010019 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010020 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 1134782010021 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782010022 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782010023 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782010024 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1134782010025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782010026 Walker A/P-loop; other site 1134782010027 ATP binding site [chemical binding]; other site 1134782010028 Q-loop/lid; other site 1134782010029 ABC transporter signature motif; other site 1134782010030 Walker B; other site 1134782010031 D-loop; other site 1134782010032 H-loop/switch region; other site 1134782010033 ABC transporter; Region: ABC_tran_2; pfam12848 1134782010034 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782010035 L,D-transpeptidase; Provisional; Region: PRK10260 1134782010036 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782010037 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1134782010038 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 1134782010039 transmembrane helices; other site 1134782010040 manganese transport regulator MntR; Provisional; Region: PRK11050 1134782010041 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 1134782010042 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1134782010043 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1134782010044 Sulfatase; Region: Sulfatase; pfam00884 1134782010045 outer membrane protein X; Provisional; Region: ompX; PRK09408 1134782010046 threonine and homoserine efflux system; Provisional; Region: PRK10532 1134782010047 EamA-like transporter family; Region: EamA; pfam00892 1134782010048 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1134782010049 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1134782010050 dimerization interface [polypeptide binding]; other site 1134782010051 DPS ferroxidase diiron center [ion binding]; other site 1134782010052 ion pore; other site 1134782010053 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1134782010054 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782010055 substrate binding pocket [chemical binding]; other site 1134782010056 membrane-bound complex binding site; other site 1134782010057 hinge residues; other site 1134782010058 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782010059 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782010060 dimer interface [polypeptide binding]; other site 1134782010061 conserved gate region; other site 1134782010062 putative PBP binding loops; other site 1134782010063 ABC-ATPase subunit interface; other site 1134782010064 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1134782010065 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1134782010066 Walker A/P-loop; other site 1134782010067 ATP binding site [chemical binding]; other site 1134782010068 Q-loop/lid; other site 1134782010069 ABC transporter signature motif; other site 1134782010070 Walker B; other site 1134782010071 D-loop; other site 1134782010072 H-loop/switch region; other site 1134782010073 putative mechanosensitive channel protein; Provisional; Region: PRK11465 1134782010074 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782010075 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 1134782010076 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1134782010077 hypothetical protein; Provisional; Region: PRK10259 1134782010078 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 1134782010079 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782010080 N-terminal plug; other site 1134782010081 ligand-binding site [chemical binding]; other site 1134782010082 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1134782010083 hypothetical protein; Provisional; Region: PRK11019 1134782010084 hypothetical protein; Provisional; Region: PRK10259 1134782010085 putative dehydrogenase; Provisional; Region: PRK10098 1134782010086 glycosyl transferase family protein; Provisional; Region: PRK08136 1134782010087 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1134782010088 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1134782010089 DEAD_2; Region: DEAD_2; pfam06733 1134782010090 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1134782010091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3236 1134782010092 helicase 45; Provisional; Region: PTZ00424 1134782010093 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1134782010094 ATP binding site [chemical binding]; other site 1134782010095 Mg++ binding site [ion binding]; other site 1134782010096 motif III; other site 1134782010097 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782010098 nucleotide binding region [chemical binding]; other site 1134782010099 ATP-binding site [chemical binding]; other site 1134782010100 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1134782010101 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1134782010102 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1134782010103 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782010104 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782010105 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1134782010106 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1134782010107 Walker A/P-loop; other site 1134782010108 ATP binding site [chemical binding]; other site 1134782010109 Q-loop/lid; other site 1134782010110 ABC transporter signature motif; other site 1134782010111 Walker B; other site 1134782010112 D-loop; other site 1134782010113 H-loop/switch region; other site 1134782010114 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1134782010115 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1134782010116 Walker A/P-loop; other site 1134782010117 ATP binding site [chemical binding]; other site 1134782010118 Q-loop/lid; other site 1134782010119 ABC transporter signature motif; other site 1134782010120 Walker B; other site 1134782010121 D-loop; other site 1134782010122 H-loop/switch region; other site 1134782010123 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1134782010124 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1134782010125 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1134782010126 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1134782010127 Putative inner membrane protein YbhQ; Region: YbhQ; pfam11076 1134782010128 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1134782010129 putative catalytic site [active] 1134782010130 putative metal binding site [ion binding]; other site 1134782010131 putative phosphate binding site [ion binding]; other site 1134782010132 cardiolipin synthase 2; Provisional; Region: PRK11263 1134782010133 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1134782010134 putative active site [active] 1134782010135 catalytic site [active] 1134782010136 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 1134782010137 putative active site [active] 1134782010138 catalytic site [active] 1134782010139 Predicted integral membrane protein [Function unknown]; Region: COG0392 1134782010140 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1134782010141 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1134782010142 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1134782010143 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 1134782010144 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1134782010145 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1134782010146 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1134782010147 MoaE homodimer interface [polypeptide binding]; other site 1134782010148 MoaD interaction [polypeptide binding]; other site 1134782010149 active site residues [active] 1134782010150 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1134782010151 MoaE interaction surface [polypeptide binding]; other site 1134782010152 MoeB interaction surface [polypeptide binding]; other site 1134782010153 thiocarboxylated glycine; other site 1134782010154 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1134782010155 trimer interface [polypeptide binding]; other site 1134782010156 dimer interface [polypeptide binding]; other site 1134782010157 putative active site [active] 1134782010158 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1134782010159 MPT binding site; other site 1134782010160 trimer interface [polypeptide binding]; other site 1134782010161 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1134782010162 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782010163 FeS/SAM binding site; other site 1134782010164 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1134782010165 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1134782010166 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1134782010167 putative substrate binding pocket [chemical binding]; other site 1134782010168 dimer interface [polypeptide binding]; other site 1134782010169 phosphate binding site [ion binding]; other site 1134782010170 excinuclease ABC subunit B; Provisional; Region: PRK05298 1134782010171 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782010172 ATP binding site [chemical binding]; other site 1134782010173 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782010174 nucleotide binding region [chemical binding]; other site 1134782010175 ATP-binding site [chemical binding]; other site 1134782010176 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1134782010177 UvrB/uvrC motif; Region: UVR; pfam02151 1134782010178 AAA domain; Region: AAA_26; pfam13500 1134782010179 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1134782010180 Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and...; Region: DTBS; cd03109 1134782010181 ADP binding site [chemical binding]; other site 1134782010182 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1134782010183 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782010184 S-adenosylmethionine binding site [chemical binding]; other site 1134782010185 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1134782010186 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1134782010187 substrate-cofactor binding pocket; other site 1134782010188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782010189 catalytic residue [active] 1134782010190 biotin synthase; Provisional; Region: PRK15108 1134782010191 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782010192 FeS/SAM binding site; other site 1134782010193 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1134782010194 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1134782010195 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782010196 inhibitor-cofactor binding pocket; inhibition site 1134782010197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782010198 catalytic residue [active] 1134782010199 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1134782010200 substrate binding site [chemical binding]; other site 1134782010201 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1134782010202 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782010203 metal binding site [ion binding]; metal-binding site 1134782010204 active site 1134782010205 I-site; other site 1134782010206 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1134782010207 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782010208 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782010209 Phage Tail Collar Domain; Region: Collar; pfam07484 1134782010210 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1134782010211 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782010212 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1134782010213 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782010214 Fibronectin type III protein; Region: DUF3672; pfam12421 1134782010215 Phage-related protein, tail component [Function unknown]; Region: COG4723 1134782010216 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1134782010217 MPN+ (JAMM) motif; other site 1134782010218 Zinc-binding site [ion binding]; other site 1134782010219 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782010220 NlpC/P60 family; Region: NLPC_P60; cl17555 1134782010221 Phage-related protein [Function unknown]; Region: gp18; COG4672 1134782010222 Phage-related protein [Function unknown]; Region: COG4718 1134782010223 Phage-related minor tail protein [Function unknown]; Region: COG5281 1134782010224 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1134782010225 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1134782010226 Minor tail protein T; Region: Phage_tail_T; pfam06223 1134782010227 Bacteriophage lambda minor tail protein (GpG); Region: Phage_lambd_GpG; pfam06894 1134782010228 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1134782010229 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1134782010230 Phage minor tail protein U; Region: Phage_tail_U; pfam06141 1134782010231 Prophage minor tail protein Z (GPZ); Region: Minor_tail_Z; pfam06763 1134782010232 Phage Head-Tail Attachment; Region: Phage_attach; pfam05354 1134782010233 DNA packaging protein FI; Region: Packaging_FI; pfam14000 1134782010234 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1134782010235 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 1134782010236 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 1134782010237 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1134782010238 tandem repeat interface [polypeptide binding]; other site 1134782010239 oligomer interface [polypeptide binding]; other site 1134782010240 active site residues [active] 1134782010241 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1134782010242 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1134782010243 gpW; Region: gpW; pfam02831 1134782010244 Phage terminase, large subunit GpA [Replication, recombination and repair]; Region: COG5525 1134782010245 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1134782010246 Phage DNA packaging protein Nu1; Region: Phage_Nu1; pfam07471 1134782010247 Domain of unknown function (DUF3950); Region: DUF3950; pfam13132 1134782010248 Protein of unknown function (DUF1398); Region: DUF1398; pfam07166 1134782010249 KilA-N domain; Region: KilA-N; pfam04383 1134782010250 ORF11CD3 domain; Region: ORF11CD3; pfam10549 1134782010251 Bacteriophage lysis protein; Region: Phage_lysis; pfam03245 1134782010252 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1134782010253 catalytic residues [active] 1134782010254 Lysis protein S; Region: Lysis_S; pfam04971 1134782010255 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782010256 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1134782010257 trimer interface [polypeptide binding]; other site 1134782010258 eyelet of channel; other site 1134782010259 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1134782010260 Endodeoxyribonuclease RusA; Region: RusA; cl01885 1134782010261 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 1134782010262 prophage protein NinE; Provisional; Region: PRK09689 1134782010263 hypothetical protein; Provisional; Region: PRK09741 1134782010264 P22AR C-terminal domain; Region: P22_AR_C; pfam10548 1134782010265 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1134782010266 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1134782010267 Replication protein P; Region: Phage_lambda_P; pfam06992 1134782010268 Bacteriophage replication protein O; Region: Phage_rep_O; pfam04492 1134782010269 Protein of unknown function (DUF1019); Region: DUF1019; pfam06254 1134782010270 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 1134782010271 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782010272 non-specific DNA binding site [nucleotide binding]; other site 1134782010273 salt bridge; other site 1134782010274 Predicted transcriptional regulator [Transcription]; Region: COG2932 1134782010275 sequence-specific DNA binding site [nucleotide binding]; other site 1134782010276 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782010277 Catalytic site [active] 1134782010278 FtsZ inhibitor protein; Reviewed; Region: kil; PRK11354 1134782010279 Host-nuclease inhibitor protein Gam; Region: Gam; pfam06064 1134782010280 phage recombination protein Bet; Region: bet_lambda; TIGR01913 1134782010281 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 1134782010282 Protein of unknown function (DUF1317); Region: DUF1317; pfam07026 1134782010283 Protein of unknown function (DUF1382); Region: DUF1382; pfam07131 1134782010284 DksA-like zinc finger domain containing protein; Region: PHA00080 1134782010285 Excisionase-like protein; Region: Exc; pfam07825 1134782010286 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1134782010287 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1134782010288 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1134782010289 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 1134782010290 dimer interface [polypeptide binding]; other site 1134782010291 active site 1134782010292 Int/Topo IB signature motif; other site 1134782010293 acyl-CoA thioesterase; Provisional; Region: PRK10531 1134782010294 putative pectinesterase; Region: PLN02432; cl01911 1134782010295 putative hydratase; Provisional; Region: PRK11413 1134782010296 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 1134782010297 substrate binding site [chemical binding]; other site 1134782010298 ligand binding site [chemical binding]; other site 1134782010299 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 1134782010300 substrate binding site [chemical binding]; other site 1134782010301 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1134782010302 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1134782010303 transmembrane helices; other site 1134782010304 PrpF protein; Region: PrpF; pfam04303 1134782010305 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782010306 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782010307 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1134782010308 putative dimerization interface [polypeptide binding]; other site 1134782010309 6-phosphogluconolactonase; Provisional; Region: PRK11028 1134782010310 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1134782010311 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010312 motif II; other site 1134782010313 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010314 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1134782010315 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782010316 Walker A/P-loop; other site 1134782010317 ATP binding site [chemical binding]; other site 1134782010318 Q-loop/lid; other site 1134782010319 ABC transporter signature motif; other site 1134782010320 Walker B; other site 1134782010321 D-loop; other site 1134782010322 H-loop/switch region; other site 1134782010323 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1134782010324 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1134782010325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782010326 putative PBP binding loops; other site 1134782010327 ABC-ATPase subunit interface; other site 1134782010328 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1134782010329 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782010330 substrate binding pocket [chemical binding]; other site 1134782010331 membrane-bound complex binding site; other site 1134782010332 hinge residues; other site 1134782010333 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 1134782010334 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1134782010335 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1134782010336 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1134782010337 TOBE domain; Region: TOBE; pfam03459 1134782010338 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 1134782010339 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 1134782010340 Walker A/P-loop; other site 1134782010341 ATP binding site [chemical binding]; other site 1134782010342 Q-loop/lid; other site 1134782010343 ABC transporter signature motif; other site 1134782010344 Walker B; other site 1134782010345 D-loop; other site 1134782010346 H-loop/switch region; other site 1134782010347 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782010348 Walker A/P-loop; other site 1134782010349 ATP binding site [chemical binding]; other site 1134782010350 Q-loop/lid; other site 1134782010351 ABC transporter signature motif; other site 1134782010352 Walker B; other site 1134782010353 D-loop; other site 1134782010354 H-loop/switch region; other site 1134782010355 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 1134782010356 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1134782010357 NAD binding site [chemical binding]; other site 1134782010358 homodimer interface [polypeptide binding]; other site 1134782010359 active site 1134782010360 substrate binding site [chemical binding]; other site 1134782010361 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1134782010362 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1134782010363 dimer interface [polypeptide binding]; other site 1134782010364 active site 1134782010365 galactokinase; Provisional; Region: PRK05101 1134782010366 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1134782010367 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1134782010368 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1134782010369 active site 1134782010370 catalytic residues [active] 1134782010371 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1134782010372 catalytic core [active] 1134782010373 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1134782010374 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1134782010375 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1134782010376 YbgS-like protein; Region: YbgS; pfam13985 1134782010377 zinc transporter ZitB; Provisional; Region: PRK03557 1134782010378 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 1134782010379 quinolinate synthetase; Provisional; Region: PRK09375 1134782010380 tol-pal system protein YbgF; Provisional; Region: PRK10803 1134782010381 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1134782010382 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1134782010383 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1134782010384 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782010385 ligand binding site [chemical binding]; other site 1134782010386 translocation protein TolB; Provisional; Region: tolB; PRK03629 1134782010387 TolB amino-terminal domain; Region: TolB_N; pfam04052 1134782010388 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1134782010389 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1134782010390 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1134782010391 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1134782010392 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1134782010393 TolA C-terminal; Region: TolA; pfam06519 1134782010394 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1134782010395 colicin uptake protein TolR; Provisional; Region: PRK11024 1134782010396 colicin uptake protein TolQ; Provisional; Region: PRK10801 1134782010397 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1134782010398 active site 1134782010399 hypothetical protein; Provisional; Region: PRK10588 1134782010400 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1134782010401 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003 1134782010402 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 1134782010403 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1134782010404 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1134782010405 alpha-mannosidase; Provisional; Region: PRK09819 1134782010406 N-terminal catalytic domain of Escherichia coli alpha-mannosidase MngB and its bacterial homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_EcMngB_like; cd10815 1134782010407 active site 1134782010408 metal binding site [ion binding]; metal-binding site 1134782010409 catalytic site [active] 1134782010410 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 1134782010411 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1134782010412 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782010413 active site 1134782010414 phosphorylation site [posttranslational modification] 1134782010415 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782010416 active site 1134782010417 P-loop; other site 1134782010418 phosphorylation site [posttranslational modification] 1134782010419 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1134782010420 DNA-binding transcriptional repressor MngR; Provisional; Region: PRK09764 1134782010421 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782010422 DNA-binding site [nucleotide binding]; DNA binding site 1134782010423 UTRA domain; Region: UTRA; pfam07702 1134782010424 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1134782010425 CoA binding domain; Region: CoA_binding; smart00881 1134782010426 CoA-ligase; Region: Ligase_CoA; pfam00549 1134782010427 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1134782010428 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1134782010429 CoA-ligase; Region: Ligase_CoA; pfam00549 1134782010430 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1134782010431 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1134782010432 E3 interaction surface; other site 1134782010433 lipoyl attachment site [posttranslational modification]; other site 1134782010434 e3 binding domain; Region: E3_binding; pfam02817 1134782010435 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1134782010436 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1134782010437 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1134782010438 TPP-binding site [chemical binding]; other site 1134782010439 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1134782010440 dimer interface [polypeptide binding]; other site 1134782010441 PYR/PP interface [polypeptide binding]; other site 1134782010442 TPP binding site [chemical binding]; other site 1134782010443 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1134782010444 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1134782010445 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1134782010446 L-aspartate oxidase; Provisional; Region: PRK06175 1134782010447 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1134782010448 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1134782010449 SdhC subunit interface [polypeptide binding]; other site 1134782010450 proximal heme binding site [chemical binding]; other site 1134782010451 cardiolipin binding site; other site 1134782010452 Iron-sulfur protein interface; other site 1134782010453 proximal quinone binding site [chemical binding]; other site 1134782010454 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1134782010455 Iron-sulfur protein interface; other site 1134782010456 proximal quinone binding site [chemical binding]; other site 1134782010457 SdhD (CybS) interface [polypeptide binding]; other site 1134782010458 proximal heme binding site [chemical binding]; other site 1134782010459 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1134782010460 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1134782010461 dimer interface [polypeptide binding]; other site 1134782010462 active site 1134782010463 citrylCoA binding site [chemical binding]; other site 1134782010464 NADH binding [chemical binding]; other site 1134782010465 cationic pore residues; other site 1134782010466 oxalacetate/citrate binding site [chemical binding]; other site 1134782010467 coenzyme A binding site [chemical binding]; other site 1134782010468 catalytic triad [active] 1134782010469 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1134782010470 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782010471 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782010472 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782010473 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782010474 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782010475 Fimbrial protein; Region: Fimbrial; pfam00419 1134782010476 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 1134782010477 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1134782010478 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1134782010479 endonuclease VIII; Provisional; Region: PRK10445 1134782010480 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1134782010481 DNA binding site [nucleotide binding] 1134782010482 catalytic residue [active] 1134782010483 putative catalytic residues [active] 1134782010484 H2TH interface [polypeptide binding]; other site 1134782010485 intercalation triad [nucleotide binding]; other site 1134782010486 substrate specificity determining residue; other site 1134782010487 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1134782010488 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1134782010489 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 1134782010490 putative active site [active] 1134782010491 biotin-dependent carboxylase uncharacterized domain; Region: urea_amlyse_rel; TIGR00724 1134782010492 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1134782010493 sensor histidine kinase inhibitor, KipI family; Region: TIGR00370 1134782010494 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1134782010495 metal-binding protein; Provisional; Region: PRK10799 1134782010496 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1134782010497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782010498 putative substrate translocation pore; other site 1134782010499 POT family; Region: PTR2; pfam00854 1134782010500 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1134782010501 DNA photolyase; Region: DNA_photolyase; pfam00875 1134782010502 hypothetical protein; Provisional; Region: PRK10167 1134782010503 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1134782010504 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1134782010505 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782010506 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782010507 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1134782010508 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782010509 RHS protein; Region: RHS; pfam03527 1134782010510 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782010511 PAAR motif; Region: PAAR_motif; cl15808 1134782010512 RHS Repeat; Region: RHS_repeat; pfam05593 1134782010513 RHS Repeat; Region: RHS_repeat; pfam05593 1134782010514 RHS Repeat; Region: RHS_repeat; cl11982 1134782010515 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782010516 RHS Repeat; Region: RHS_repeat; pfam05593 1134782010517 RHS Repeat; Region: RHS_repeat; pfam05593 1134782010518 RHS protein; Region: RHS; pfam03527 1134782010519 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782010520 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 1134782010521 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1134782010522 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1134782010523 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1134782010524 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1134782010525 sensor protein KdpD; Provisional; Region: PRK10490 1134782010526 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1134782010527 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1134782010528 Ligand Binding Site [chemical binding]; other site 1134782010529 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1134782010530 GAF domain; Region: GAF_3; pfam13492 1134782010531 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782010532 dimer interface [polypeptide binding]; other site 1134782010533 phosphorylation site [posttranslational modification] 1134782010534 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782010535 ATP binding site [chemical binding]; other site 1134782010536 Mg2+ binding site [ion binding]; other site 1134782010537 G-X-G motif; other site 1134782010538 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1134782010539 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782010540 active site 1134782010541 phosphorylation site [posttranslational modification] 1134782010542 intermolecular recognition site; other site 1134782010543 dimerization interface [polypeptide binding]; other site 1134782010544 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782010545 DNA binding site [nucleotide binding] 1134782010546 ornithine decarboxylase; Provisional; Region: PRK13578 1134782010547 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1134782010548 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1134782010549 homodimer interface [polypeptide binding]; other site 1134782010550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782010551 catalytic residue [active] 1134782010552 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1134782010553 putrescine transporter; Provisional; Region: potE; PRK10655 1134782010554 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1134782010555 phosphoglucomutase, alpha-D-glucose phosphate-specific; Region: pgm; TIGR01132 1134782010556 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1134782010557 active site 1134782010558 substrate binding site [chemical binding]; other site 1134782010559 metal binding site [ion binding]; metal-binding site 1134782010560 replication initiation regulator SeqA; Provisional; Region: PRK11187 1134782010561 acyl-CoA esterase; Provisional; Region: PRK10673 1134782010562 PGAP1-like protein; Region: PGAP1; pfam07819 1134782010563 LexA regulated protein; Provisional; Region: PRK11675 1134782010564 flavodoxin FldA; Validated; Region: PRK09267 1134782010565 ryhB-regulated fur leader peptide; Provisional; Region: PRK14761 1134782010566 ferric uptake regulator; Provisional; Region: fur; PRK09462 1134782010567 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1134782010568 metal binding site 2 [ion binding]; metal-binding site 1134782010569 putative DNA binding helix; other site 1134782010570 metal binding site 1 [ion binding]; metal-binding site 1134782010571 dimer interface [polypeptide binding]; other site 1134782010572 structural Zn2+ binding site [ion binding]; other site 1134782010573 YbfN-like lipoprotein; Region: YbfN; pfam13982 1134782010574 outer membrane porin, OprD family; Region: OprD; pfam03573 1134782010575 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1134782010576 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1134782010577 active site 1134782010578 HIGH motif; other site 1134782010579 nucleotide binding site [chemical binding]; other site 1134782010580 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1134782010581 KMSKS motif; other site 1134782010582 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1134782010583 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 1134782010584 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782010585 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782010586 active site turn [active] 1134782010587 phosphorylation site [posttranslational modification] 1134782010588 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1134782010589 HPr interaction site; other site 1134782010590 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1134782010591 active site 1134782010592 phosphorylation site [posttranslational modification] 1134782010593 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1134782010594 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1134782010595 active site 1134782010596 trimer interface [polypeptide binding]; other site 1134782010597 allosteric site; other site 1134782010598 active site lid [active] 1134782010599 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1134782010600 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 1134782010601 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1134782010602 active site 1134782010603 dimer interface [polypeptide binding]; other site 1134782010604 MarR family; Region: MarR; pfam01047 1134782010605 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1134782010606 ROK family; Region: ROK; pfam00480 1134782010607 UMP phosphatase; Provisional; Region: PRK10444 1134782010608 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010609 active site 1134782010610 motif I; other site 1134782010611 motif II; other site 1134782010612 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782010613 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1134782010614 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1134782010615 active site 1134782010616 dimer interface [polypeptide binding]; other site 1134782010617 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1134782010618 Ligand Binding Site [chemical binding]; other site 1134782010619 Molecular Tunnel; other site 1134782010620 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1134782010621 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1134782010622 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1134782010623 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1134782010624 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782010625 FeS/SAM binding site; other site 1134782010626 TRAM domain; Region: TRAM; pfam01938 1134782010627 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1134782010628 PhoH-like protein; Region: PhoH; pfam02562 1134782010629 metal-binding heat shock protein; Provisional; Region: PRK00016 1134782010630 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 1134782010631 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1134782010632 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782010633 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1134782010634 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1134782010635 putative active site [active] 1134782010636 catalytic triad [active] 1134782010637 putative dimer interface [polypeptide binding]; other site 1134782010638 potential frameshift: common BLAST hit: gi|260866804|ref|YP_003233206.1| rhomboid family protein 1134782010639 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1134782010640 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782010641 substrate binding pocket [chemical binding]; other site 1134782010642 membrane-bound complex binding site; other site 1134782010643 hinge residues; other site 1134782010644 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782010645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782010646 dimer interface [polypeptide binding]; other site 1134782010647 conserved gate region; other site 1134782010648 putative PBP binding loops; other site 1134782010649 ABC-ATPase subunit interface; other site 1134782010650 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1134782010651 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782010652 dimer interface [polypeptide binding]; other site 1134782010653 conserved gate region; other site 1134782010654 putative PBP binding loops; other site 1134782010655 ABC-ATPase subunit interface; other site 1134782010656 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1134782010657 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1134782010658 Walker A/P-loop; other site 1134782010659 ATP binding site [chemical binding]; other site 1134782010660 Q-loop/lid; other site 1134782010661 ABC transporter signature motif; other site 1134782010662 Walker B; other site 1134782010663 D-loop; other site 1134782010664 H-loop/switch region; other site 1134782010665 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1134782010666 active site 1134782010667 tetramer interface [polypeptide binding]; other site 1134782010668 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1134782010669 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 1134782010670 nucleotide binding site [chemical binding]; other site 1134782010671 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1134782010672 SBD interface [polypeptide binding]; other site 1134782010673 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cl02542 1134782010674 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 1134782010675 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1134782010676 Sel1-like repeats; Region: SEL1; smart00671 1134782010677 Sel1-like repeats; Region: SEL1; smart00671 1134782010678 Sel1-like repeats; Region: SEL1; smart00671 1134782010679 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 1134782010680 HSP70 interaction site [polypeptide binding]; other site 1134782010681 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 1134782010682 Sel1-like repeats; Region: SEL1; smart00671 1134782010683 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1134782010684 Sel1-like repeats; Region: SEL1; smart00671 1134782010685 Sel1-like repeats; Region: SEL1; smart00671 1134782010686 Sel1-like repeats; Region: SEL1; smart00671 1134782010687 Sel1-like repeats; Region: SEL1; smart00671 1134782010688 Sel1-like repeats; Region: SEL1; smart00671 1134782010689 Sel1-like repeats; Region: SEL1; smart00671 1134782010690 hypothetical protein; Provisional; Region: PRK11032 1134782010691 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 1134782010692 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1134782010693 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1134782010694 HIGH motif; other site 1134782010695 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1134782010696 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1134782010697 active site 1134782010698 KMSKS motif; other site 1134782010699 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1134782010700 tRNA binding surface [nucleotide binding]; other site 1134782010701 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1134782010702 LPS-assembly lipoprotein RlpB; Provisional; Region: PRK10796 1134782010703 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1134782010704 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1134782010705 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1134782010706 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1134782010707 active site 1134782010708 (T/H)XGH motif; other site 1134782010709 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1134782010710 catalytic core [active] 1134782010711 ribosome-associated protein; Provisional; Region: PRK11538 1134782010712 rRNA large subunit m3Psi methyltransferase RlmH; Region: tRNA_RlmH_YbeA; TIGR00246 1134782010713 penicillin-binding protein 2; Provisional; Region: PRK10795 1134782010714 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1134782010715 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1134782010716 cell wall shape-determining protein; Provisional; Region: PRK10794 1134782010717 rare lipoprotein A; Provisional; Region: PRK10672 1134782010718 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1134782010719 Sporulation related domain; Region: SPOR; pfam05036 1134782010720 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1134782010721 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1134782010722 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1134782010723 hypothetical protein; Provisional; Region: PRK04998 1134782010724 lipoate-protein ligase B; Provisional; Region: PRK14342 1134782010725 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1134782010726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782010727 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1134782010728 substrate binding pocket [chemical binding]; other site 1134782010729 dimerization interface [polypeptide binding]; other site 1134782010730 lipoyl synthase; Provisional; Region: PRK05481 1134782010731 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782010732 FeS/SAM binding site; other site 1134782010733 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1134782010734 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1134782010735 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 1134782010736 putative active site [active] 1134782010737 catalytic triad [active] 1134782010738 putative dimer interface [polypeptide binding]; other site 1134782010739 chromosome condensation membrane protein; Provisional; Region: PRK14196 1134782010740 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1134782010741 DNA-binding site [nucleotide binding]; DNA binding site 1134782010742 RNA-binding motif; other site 1134782010743 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1134782010744 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 1134782010745 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1134782010746 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 1134782010747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782010748 active site 1134782010749 phosphorylation site [posttranslational modification] 1134782010750 intermolecular recognition site; other site 1134782010751 dimerization interface [polypeptide binding]; other site 1134782010752 Transcriptional regulator; Region: CitT; pfam12431 1134782010753 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 1134782010754 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782010755 putative active site [active] 1134782010756 heme pocket [chemical binding]; other site 1134782010757 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782010758 ATP binding site [chemical binding]; other site 1134782010759 Mg2+ binding site [ion binding]; other site 1134782010760 G-X-G motif; other site 1134782010761 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1134782010762 Citrate lyase ligase; Region: Citrate_lyase_ligase; cd02169 1134782010763 putative active site [active] 1134782010764 (T/H)XGH motif; other site 1134782010765 Citrate lyase, gamma subunit [Energy production and conversion]; Region: CitD; COG3052 1134782010766 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1134782010767 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1134782010768 Phosphoribosyl-dephospho-CoA transferase (holo-ACP synthetase) [Coenzyme metabolism / Lipid metabolism]; Region: CitX; COG3697 1134782010769 triphosphoribosyl-dephospho-CoA synthase; Provisional; Region: citG; PRK10096 1134782010770 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1134782010771 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1134782010772 transmembrane helices; other site 1134782010773 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1134782010774 B1 nucleotide binding pocket [chemical binding]; other site 1134782010775 B2 nucleotide binding pocket [chemical binding]; other site 1134782010776 CAS motifs; other site 1134782010777 active site 1134782010778 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1134782010779 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1134782010780 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 1134782010781 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782010782 NAD binding site [chemical binding]; other site 1134782010783 catalytic Zn binding site [ion binding]; other site 1134782010784 structural Zn binding site [ion binding]; other site 1134782010785 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782010786 Ligand Binding Site [chemical binding]; other site 1134782010787 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1134782010788 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1134782010789 catalytic residue [active] 1134782010790 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1134782010791 catalytic residues [active] 1134782010792 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782010793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782010794 alkyl hydroperoxide reductase subunit C; Provisional; Region: PRK10382 1134782010795 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1134782010796 dimer interface [polypeptide binding]; other site 1134782010797 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1134782010798 catalytic triad [active] 1134782010799 peroxidatic and resolving cysteines [active] 1134782010800 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 1134782010801 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1134782010802 dimerization domain [polypeptide binding]; other site 1134782010803 dimer interface [polypeptide binding]; other site 1134782010804 catalytic residues [active] 1134782010805 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1134782010806 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782010807 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782010808 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1134782010809 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1134782010810 Active Sites [active] 1134782010811 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1134782010812 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1134782010813 ParB-like nuclease domain; Region: ParBc; pfam02195 1134782010814 methionine aminotransferase; Validated; Region: PRK09082 1134782010815 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782010816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782010817 homodimer interface [polypeptide binding]; other site 1134782010818 catalytic residue [active] 1134782010819 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1134782010820 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1134782010821 putative active site [active] 1134782010822 metal binding site [ion binding]; metal-binding site 1134782010823 Uncharacterized small protein [Function unknown]; Region: COG2879 1134782010824 carbon starvation protein A; Provisional; Region: PRK15015 1134782010825 Carbon starvation protein CstA; Region: CstA; pfam02554 1134782010826 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1134782010827 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1134782010828 CoenzymeA binding site [chemical binding]; other site 1134782010829 subunit interaction site [polypeptide binding]; other site 1134782010830 PHB binding site; other site 1134782010831 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1134782010832 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1134782010833 putative NAD(P) binding site [chemical binding]; other site 1134782010834 active site 1134782010835 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1134782010836 hydrophobic substrate binding pocket; other site 1134782010837 Isochorismatase family; Region: Isochorismatase; pfam00857 1134782010838 active site 1134782010839 conserved cis-peptide bond; other site 1134782010840 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1134782010841 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1134782010842 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1134782010843 acyl-activating enzyme (AAE) consensus motif; other site 1134782010844 active site 1134782010845 AMP binding site [chemical binding]; other site 1134782010846 substrate binding site [chemical binding]; other site 1134782010847 isochorismate synthase EntC; Provisional; Region: PRK15016 1134782010848 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1134782010849 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 1134782010850 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1134782010851 siderophore binding site; other site 1134782010852 enterobactin exporter EntS; Provisional; Region: PRK10489 1134782010853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782010854 putative substrate translocation pore; other site 1134782010855 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1134782010856 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782010857 ABC-ATPase subunit interface; other site 1134782010858 dimer interface [polypeptide binding]; other site 1134782010859 putative PBP binding regions; other site 1134782010860 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1134782010861 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782010862 ABC-ATPase subunit interface; other site 1134782010863 dimer interface [polypeptide binding]; other site 1134782010864 putative PBP binding regions; other site 1134782010865 iron-enterobactin transporter ATP-binding protein; Provisional; Region: PRK10253 1134782010866 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1134782010867 Walker A/P-loop; other site 1134782010868 ATP binding site [chemical binding]; other site 1134782010869 Q-loop/lid; other site 1134782010870 ABC transporter signature motif; other site 1134782010871 Walker B; other site 1134782010872 D-loop; other site 1134782010873 H-loop/switch region; other site 1134782010874 LPS O-antigen length regulator; Provisional; Region: PRK10381 1134782010875 Chain length determinant protein; Region: Wzz; pfam02706 1134782010876 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1134782010877 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 1134782010878 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1134782010879 acyl-activating enzyme (AAE) consensus motif; other site 1134782010880 AMP binding site [chemical binding]; other site 1134782010881 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1134782010882 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 1134782010883 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 1134782010884 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 1134782010885 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1134782010886 outer membrane receptor FepA; Provisional; Region: PRK13524 1134782010887 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782010888 N-terminal plug; other site 1134782010889 ligand-binding site [chemical binding]; other site 1134782010890 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional; Region: PRK10251 1134782010891 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1134782010892 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1134782010893 Hok/gef family; Region: HOK_GEF; pfam01848 1134782010894 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782010895 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1134782010896 Hok/gef family; Region: HOK_GEF; pfam01848 1134782010897 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 1134782010898 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 1134782010899 Protein of unknown function (DUF1158); Region: DUF1158; pfam06643 1134782010900 hypothetical protein; Provisional; Region: PRK10250 1134782010901 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1134782010902 dimer interface [polypeptide binding]; other site 1134782010903 FMN binding site [chemical binding]; other site 1134782010904 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1134782010905 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782010906 phenylalanine transporter; Provisional; Region: PRK10249 1134782010907 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1134782010908 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1134782010909 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782010910 periplasmic copper-binding protein; Provisional; Region: PRK09838 1134782010911 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1134782010912 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1134782010913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782010914 active site 1134782010915 phosphorylation site [posttranslational modification] 1134782010916 intermolecular recognition site; other site 1134782010917 dimerization interface [polypeptide binding]; other site 1134782010918 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782010919 DNA binding site [nucleotide binding] 1134782010920 sensor kinase CusS; Provisional; Region: PRK09835 1134782010921 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782010922 dimerization interface [polypeptide binding]; other site 1134782010923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782010924 dimer interface [polypeptide binding]; other site 1134782010925 phosphorylation site [posttranslational modification] 1134782010926 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782010927 ATP binding site [chemical binding]; other site 1134782010928 Mg2+ binding site [ion binding]; other site 1134782010929 G-X-G motif; other site 1134782010930 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1134782010931 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1134782010932 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1134782010933 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1134782010934 Uncharacterized conserved protein [Function unknown]; Region: COG5435 1134782010935 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782010936 RHS Repeat; Region: RHS_repeat; cl11982 1134782010937 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782010938 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1134782010939 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782010940 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782010941 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782010942 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 1134782010943 active site 1134782010944 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1134782010945 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1134782010946 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 1134782010947 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782010948 TPR motif; other site 1134782010949 binding surface 1134782010950 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 1134782010951 hypothetical protein; Provisional; Region: PRK09936 1134782010952 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1134782010953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782010954 potential protein location (hypothetical protein O3M_18795 [Escherichia coli O104:H4 str. 2009EL-2050]) that overlaps RNA (tRNA-R) 1134782010955 transcriptional regulator FimZ; Provisional; Region: PRK09935 1134782010956 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782010957 active site 1134782010958 phosphorylation site [posttranslational modification] 1134782010959 intermolecular recognition site; other site 1134782010960 dimerization interface [polypeptide binding]; other site 1134782010961 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782010962 DNA binding residues [nucleotide binding] 1134782010963 dimerization interface [polypeptide binding]; other site 1134782010964 fimbrial-like adhesin protein SfmF; Provisional; Region: PRK09934 1134782010965 fimbrial-like adhesin; Provisional; Region: fimH; PRK15199 1134782010966 outer membrane usher protein FimD; Provisional; Region: PRK15198 1134782010967 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782010968 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782010969 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782010970 fimbrial chaperone protein FimC; Provisional; Region: PRK15195 1134782010971 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782010972 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782010973 type-1 fimbrial protein subunit A; Provisional; Region: PRK15194 1134782010974 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1134782010975 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1134782010976 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1134782010977 homodimer interface [polypeptide binding]; other site 1134782010978 NADP binding site [chemical binding]; other site 1134782010979 substrate binding site [chemical binding]; other site 1134782010980 ribosome-associated protein; Provisional; Region: PRK11507 1134782010981 Predicted membrane-bound metal-dependent hydrolases [General function prediction only]; Region: COG1988 1134782010982 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1134782010983 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1134782010984 active site 1134782010985 HIGH motif; other site 1134782010986 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1134782010987 KMSKS motif; other site 1134782010988 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1134782010989 tRNA binding surface [nucleotide binding]; other site 1134782010990 anticodon binding site; other site 1134782010991 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1134782010992 substrate binding site [chemical binding]; other site 1134782010993 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1134782010994 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1134782010995 putative active site [active] 1134782010996 putative metal binding site [ion binding]; other site 1134782010997 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1134782010998 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1134782010999 ATP-grasp domain; Region: ATP-grasp; pfam02222 1134782011000 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1134782011001 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1134782011002 putative substrate binding site [chemical binding]; other site 1134782011003 nucleotide binding site [chemical binding]; other site 1134782011004 nucleotide binding site [chemical binding]; other site 1134782011005 homodimer interface [polypeptide binding]; other site 1134782011006 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1134782011007 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1134782011008 membrane protein FdrA; Validated; Region: PRK06091 1134782011009 CoA binding domain; Region: CoA_binding; pfam02629 1134782011010 CoA-ligase; Region: Ligase_CoA; pfam00549 1134782011011 ureidoglycolate dehydrogenase; Provisional; Region: PRK15025 1134782011012 allantoate amidohydrolase; Region: AllC; TIGR03176 1134782011013 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1134782011014 active site 1134782011015 metal binding site [ion binding]; metal-binding site 1134782011016 dimer interface [polypeptide binding]; other site 1134782011017 Uncharacterized protein, possibly involved in glyoxylate utilization [General function prediction only]; Region: GlxB; COG3257 1134782011018 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 1134782011019 Cupin domain; Region: Cupin_2; cl17218 1134782011020 glycerate kinase II; Provisional; Region: PRK09932 1134782011021 putative uracil/xanthine transporter; Provisional; Region: PRK11412 1134782011022 allantoinase; Provisional; Region: PRK08044 1134782011023 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 1134782011024 active site 1134782011025 nucleobase-cation-symport-1 (NCS1) transporters; solute-binding domain; Region: SLC-NCS1sbd; cd10323 1134782011026 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1134782011027 Na binding site [ion binding]; other site 1134782011028 substrate binding site [chemical binding]; other site 1134782011029 tartronate semialdehyde reductase; Provisional; Region: PRK15059 1134782011030 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1134782011031 hydroxypyruvate isomerase; Provisional; Region: PRK09997 1134782011032 glyoxylate carboligase; Provisional; Region: PRK11269 1134782011033 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1134782011034 PYR/PP interface [polypeptide binding]; other site 1134782011035 dimer interface [polypeptide binding]; other site 1134782011036 TPP binding site [chemical binding]; other site 1134782011037 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782011038 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 1134782011039 TPP-binding site [chemical binding]; other site 1134782011040 DNA-binding transcriptional repressor AllR; Provisional; Region: PRK10163 1134782011041 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1134782011042 Bacterial transcriptional regulator; Region: IclR; pfam01614 1134782011043 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1134782011044 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1134782011045 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 1134782011046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782011047 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782011048 dimerization interface [polypeptide binding]; other site 1134782011049 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1134782011050 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 1134782011051 active site residue [active] 1134782011052 Winged helix-turn helix; Region: HTH_29; pfam13551 1134782011053 Helix-turn-helix domain; Region: HTH_28; pfam13518 1134782011054 hypothetical protein; Provisional; Region: PRK14710 1134782011055 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782011056 RHS protein; Region: RHS; pfam03527 1134782011057 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782011058 PAAR motif; Region: PAAR_motif; cl15808 1134782011059 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782011060 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011061 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011062 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011063 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011064 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782011065 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011066 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011067 RHS protein; Region: RHS; pfam03527 1134782011068 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782011069 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 1134782011070 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1134782011071 FtsX-like permease family; Region: FtsX; pfam02687 1134782011072 FtsX-like permease family; Region: FtsX; pfam02687 1134782011073 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 1134782011074 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1134782011075 Walker A/P-loop; other site 1134782011076 ATP binding site [chemical binding]; other site 1134782011077 Q-loop/lid; other site 1134782011078 ABC transporter signature motif; other site 1134782011079 Walker B; other site 1134782011080 D-loop; other site 1134782011081 H-loop/switch region; other site 1134782011082 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1134782011083 active site 1134782011084 catalytic triad [active] 1134782011085 oxyanion hole [active] 1134782011086 switch loop; other site 1134782011087 oxidoreductase; Provisional; Region: PRK08017 1134782011088 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1134782011089 NADP binding site [chemical binding]; other site 1134782011090 active site 1134782011091 steroid binding site; other site 1134782011092 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1134782011093 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1134782011094 Uncharacterized protein family (UPF0014); Region: UPF0014; pfam03649 1134782011095 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1134782011096 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782011097 Walker A/P-loop; other site 1134782011098 ATP binding site [chemical binding]; other site 1134782011099 Q-loop/lid; other site 1134782011100 ABC transporter signature motif; other site 1134782011101 Walker B; other site 1134782011102 D-loop; other site 1134782011103 H-loop/switch region; other site 1134782011104 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1134782011105 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1134782011106 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1134782011107 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 1134782011108 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1134782011109 DNA binding residues [nucleotide binding] 1134782011110 dimer interface [polypeptide binding]; other site 1134782011111 copper binding site [ion binding]; other site 1134782011112 amino acid transporter; Region: 2A0306; TIGR00909 1134782011113 glutaminase; Reviewed; Region: PRK12356 1134782011114 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1134782011115 copper exporting ATPase; Provisional; Region: copA; PRK10671 1134782011116 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1134782011117 metal-binding site [ion binding] 1134782011118 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1134782011119 metal-binding site [ion binding] 1134782011120 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1134782011121 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782011122 motif II; other site 1134782011123 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1134782011124 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782011125 sequence-specific DNA binding site [nucleotide binding]; other site 1134782011126 salt bridge; other site 1134782011127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1134782011128 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1134782011129 putative deacylase active site [active] 1134782011130 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1134782011131 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1134782011132 active site 1134782011133 metal binding site [ion binding]; metal-binding site 1134782011134 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1134782011135 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011136 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782011137 putative substrate translocation pore; other site 1134782011138 putative cation:proton antiport protein; Provisional; Region: PRK10669 1134782011139 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1134782011140 TrkA-N domain; Region: TrkA_N; pfam02254 1134782011141 inosine/guanosine kinase; Provisional; Region: PRK15074 1134782011142 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782011143 acetyl esterase; Provisional; Region: PRK10162 1134782011144 ferrochelatase; Region: hemH; TIGR00109 1134782011145 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1134782011146 C-terminal domain interface [polypeptide binding]; other site 1134782011147 active site 1134782011148 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1134782011149 active site 1134782011150 N-terminal domain interface [polypeptide binding]; other site 1134782011151 adenylate kinase; Reviewed; Region: adk; PRK00279 1134782011152 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1134782011153 AMP-binding site [chemical binding]; other site 1134782011154 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1134782011155 heat shock protein 90; Provisional; Region: PRK05218 1134782011156 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782011157 ATP binding site [chemical binding]; other site 1134782011158 Mg2+ binding site [ion binding]; other site 1134782011159 G-X-G motif; other site 1134782011160 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecR; COG0353 1134782011161 RecR protein; Region: RecR; pfam02132 1134782011162 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1134782011163 putative active site [active] 1134782011164 putative metal-binding site [ion binding]; other site 1134782011165 tetramer interface [polypeptide binding]; other site 1134782011166 hypothetical protein; Validated; Region: PRK00153 1134782011167 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1134782011168 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011169 Walker A motif; other site 1134782011170 ATP binding site [chemical binding]; other site 1134782011171 Walker B motif; other site 1134782011172 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1134782011173 arginine finger; other site 1134782011174 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1134782011175 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 1134782011176 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1134782011177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782011178 active site 1134782011179 hypothetical protein; Provisional; Region: PRK10527 1134782011180 primosomal replication protein N''; Provisional; Region: PRK10093 1134782011181 hypothetical protein; Provisional; Region: PRK11038 1134782011182 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782011183 hypothetical protein; Provisional; Region: PRK11281 1134782011184 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1134782011185 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1134782011186 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782011187 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1134782011188 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782011189 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1134782011190 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1134782011191 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782011192 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1134782011193 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782011194 Protein export membrane protein; Region: SecD_SecF; cl14618 1134782011195 Biofilm formation regulator YbaJ; Region: YbaJ; pfam10757 1134782011196 gene expression modulator; Provisional; Region: PRK10945 1134782011197 maltose O-acetyltransferase; Provisional; Region: PRK10092 1134782011198 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1134782011199 active site 1134782011200 substrate binding site [chemical binding]; other site 1134782011201 trimer interface [polypeptide binding]; other site 1134782011202 CoA binding site [chemical binding]; other site 1134782011203 sigma70 family sigma factor YlaC; Region: YlaC; pfam10777 1134782011204 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1134782011205 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1134782011206 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782011207 Uncharacterized conserved protein [Function unknown]; Region: COG5507 1134782011208 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1134782011209 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1134782011210 DNA binding site [nucleotide binding] 1134782011211 active site 1134782011212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1134782011213 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1134782011214 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1134782011215 active site 1134782011216 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1134782011217 catalytic triad [active] 1134782011218 dimer interface [polypeptide binding]; other site 1134782011219 ammonium transporter; Provisional; Region: PRK10666 1134782011220 nitrogen regulatory protein P-II 2; Provisional; Region: PRK10665 1134782011221 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1134782011222 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 1134782011223 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782011224 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 1134782011225 Walker A/P-loop; other site 1134782011226 ATP binding site [chemical binding]; other site 1134782011227 Q-loop/lid; other site 1134782011228 ABC transporter signature motif; other site 1134782011229 Walker B; other site 1134782011230 D-loop; other site 1134782011231 H-loop/switch region; other site 1134782011232 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1134782011233 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1134782011234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782011235 Walker A/P-loop; other site 1134782011236 ATP binding site [chemical binding]; other site 1134782011237 Q-loop/lid; other site 1134782011238 ABC transporter signature motif; other site 1134782011239 Walker B; other site 1134782011240 D-loop; other site 1134782011241 H-loop/switch region; other site 1134782011242 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1134782011243 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782011244 putative DNA binding site [nucleotide binding]; other site 1134782011245 putative Zn2+ binding site [ion binding]; other site 1134782011246 AsnC family; Region: AsnC_trans_reg; pfam01037 1134782011247 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 1134782011248 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782011249 active site 1134782011250 motif I; other site 1134782011251 motif II; other site 1134782011252 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4533 1134782011253 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1134782011254 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 1134782011255 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1134782011256 Ligand Binding Site [chemical binding]; other site 1134782011257 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1134782011258 active site 1134782011259 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1134782011260 periplasmic folding chaperone; Provisional; Region: PRK10788 1134782011261 SurA N-terminal domain; Region: SurA_N_3; cl07813 1134782011262 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1134782011263 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1134782011264 IHF dimer interface [polypeptide binding]; other site 1134782011265 IHF - DNA interface [nucleotide binding]; other site 1134782011266 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 1134782011267 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1134782011268 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1134782011269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011270 Walker A motif; other site 1134782011271 ATP binding site [chemical binding]; other site 1134782011272 Walker B motif; other site 1134782011273 arginine finger; other site 1134782011274 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1134782011275 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1134782011276 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1134782011277 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011278 Walker A motif; other site 1134782011279 ATP binding site [chemical binding]; other site 1134782011280 Walker B motif; other site 1134782011281 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1134782011282 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1134782011283 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1134782011284 oligomer interface [polypeptide binding]; other site 1134782011285 active site residues [active] 1134782011286 trigger factor; Provisional; Region: tig; PRK01490 1134782011287 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1134782011288 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1134782011289 transcriptional regulator BolA; Provisional; Region: PRK11628 1134782011290 hypothetical protein; Provisional; Region: PRK11627 1134782011291 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1134782011292 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1134782011293 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011294 putative substrate translocation pore; other site 1134782011295 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 1134782011296 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1134782011297 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1134782011298 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1134782011299 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1134782011300 D-pathway; other site 1134782011301 Putative ubiquinol binding site [chemical binding]; other site 1134782011302 Low-spin heme (heme b) binding site [chemical binding]; other site 1134782011303 Putative water exit pathway; other site 1134782011304 Binuclear center (heme o3/CuB) [ion binding]; other site 1134782011305 K-pathway; other site 1134782011306 Putative proton exit pathway; other site 1134782011307 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1134782011308 Subunit I/III interface [polypeptide binding]; other site 1134782011309 Subunit III/IV interface [polypeptide binding]; other site 1134782011310 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 1134782011311 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 1134782011312 UbiA prenyltransferase family; Region: UbiA; pfam01040 1134782011313 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1134782011314 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1134782011315 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1134782011316 Sel1 repeat; Region: Sel1; pfam08238 1134782011317 Sel1-like repeats; Region: SEL1; smart00671 1134782011318 Sel1-like repeats; Region: SEL1; smart00671 1134782011319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011320 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782011321 putative substrate translocation pore; other site 1134782011322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1134782011323 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1134782011324 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1134782011325 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1134782011326 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1134782011327 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 1134782011328 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1134782011329 conserved cys residue [active] 1134782011330 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1134782011331 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1134782011332 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1134782011333 Ligand Binding Site [chemical binding]; other site 1134782011334 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1134782011335 active site residue [active] 1134782011336 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1134782011337 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1134782011338 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1134782011339 substrate binding pocket [chemical binding]; other site 1134782011340 chain length determination region; other site 1134782011341 substrate-Mg2+ binding site; other site 1134782011342 catalytic residues [active] 1134782011343 aspartate-rich region 1; other site 1134782011344 active site lid residues [active] 1134782011345 aspartate-rich region 2; other site 1134782011346 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 1134782011347 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1134782011348 TPP-binding site; other site 1134782011349 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1134782011350 PYR/PP interface [polypeptide binding]; other site 1134782011351 dimer interface [polypeptide binding]; other site 1134782011352 TPP binding site [chemical binding]; other site 1134782011353 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1134782011354 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782011355 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782011356 active site 1134782011357 catalytic tetrad [active] 1134782011358 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1134782011359 tetramer interfaces [polypeptide binding]; other site 1134782011360 binuclear metal-binding site [ion binding]; other site 1134782011361 thiamine monophosphate kinase; Provisional; Region: PRK05731 1134782011362 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1134782011363 ATP binding site [chemical binding]; other site 1134782011364 dimerization interface [polypeptide binding]; other site 1134782011365 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1134782011366 putative RNA binding site [nucleotide binding]; other site 1134782011367 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1134782011368 homopentamer interface [polypeptide binding]; other site 1134782011369 active site 1134782011370 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1134782011371 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1134782011372 catalytic motif [active] 1134782011373 Zn binding site [ion binding]; other site 1134782011374 riboflavin-specific deaminase C-terminal domain; Region: ribD_Cterm; TIGR00227 1134782011375 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1134782011376 ATP cone domain; Region: ATP-cone; pfam03477 1134782011377 potential frameshift: common BLAST hit: gi|260866570|ref|YP_003232972.1| putative lipoprotein 1134782011378 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 1134782011379 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782011380 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1134782011381 active site 1134782011382 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1134782011383 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1134782011384 Protein export membrane protein; Region: SecD_SecF; pfam02355 1134782011385 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1134782011386 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1134782011387 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1134782011388 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1134782011389 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1134782011390 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1134782011391 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 1134782011392 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1134782011393 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1134782011394 acyl carrier protein phosphodiesterase; Provisional; Region: PRK10045 1134782011395 maltodextrin glucosidase; Provisional; Region: PRK10785 1134782011396 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1134782011397 homodimer interface [polypeptide binding]; other site 1134782011398 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1134782011399 active site 1134782011400 homodimer interface [polypeptide binding]; other site 1134782011401 catalytic site [active] 1134782011402 putative proline-specific permease; Provisional; Region: proY; PRK10580 1134782011403 Spore germination protein; Region: Spore_permease; cl17796 1134782011404 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional; Region: PRK15433 1134782011405 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 1134782011406 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1134782011407 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782011408 putative active site [active] 1134782011409 heme pocket [chemical binding]; other site 1134782011410 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782011411 dimer interface [polypeptide binding]; other site 1134782011412 phosphorylation site [posttranslational modification] 1134782011413 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782011414 ATP binding site [chemical binding]; other site 1134782011415 Mg2+ binding site [ion binding]; other site 1134782011416 G-X-G motif; other site 1134782011417 transcriptional regulator PhoB; Provisional; Region: PRK10161 1134782011418 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782011419 active site 1134782011420 phosphorylation site [posttranslational modification] 1134782011421 intermolecular recognition site; other site 1134782011422 dimerization interface [polypeptide binding]; other site 1134782011423 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782011424 DNA binding site [nucleotide binding] 1134782011425 exonuclease subunit SbcD; Provisional; Region: PRK10966 1134782011426 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1134782011427 active site 1134782011428 metal binding site [ion binding]; metal-binding site 1134782011429 DNA binding site [nucleotide binding] 1134782011430 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1134782011431 exonuclease subunit SbcC; Provisional; Region: PRK10246 1134782011432 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782011433 Walker A/P-loop; other site 1134782011434 ATP binding site [chemical binding]; other site 1134782011435 Q-loop/lid; other site 1134782011436 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782011437 ABC transporter signature motif; other site 1134782011438 Walker B; other site 1134782011439 D-loop; other site 1134782011440 H-loop/switch region; other site 1134782011441 MFS transport protein AraJ; Provisional; Region: PRK10091 1134782011442 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011443 putative substrate translocation pore; other site 1134782011444 fructokinase; Reviewed; Region: PRK09557 1134782011445 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782011446 nucleotide binding site [chemical binding]; other site 1134782011447 DNA recombination-dependent growth factor C [DNA replication, recombination, and repair]; Region: RdgC; COG2974 1134782011448 Protein of unknown function (DUF1861); Region: DUF1861; pfam08950 1134782011449 hypothetical protein; Provisional; Region: PRK10579 1134782011450 hypothetical protein; Provisional; Region: PRK10481 1134782011451 hypothetical protein; Provisional; Region: PRK10380 1134782011452 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1134782011453 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1134782011454 ADP binding site [chemical binding]; other site 1134782011455 magnesium binding site [ion binding]; other site 1134782011456 putative shikimate binding site; other site 1134782011457 hypothetical protein; Validated; Region: PRK00124 1134782011458 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1134782011459 pyrroline-5-carboxylate reductase; Region: PLN02688 1134782011460 diguanylate cyclase AdrA; Provisional; Region: adrA; PRK10245 1134782011461 MASE2 domain; Region: MASE2; pfam05230 1134782011462 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1134782011463 metal binding site [ion binding]; metal-binding site 1134782011464 active site 1134782011465 I-site; other site 1134782011466 hypothetical protein; Provisional; Region: PRK11505 1134782011467 psiF repeat; Region: PsiF_repeat; pfam07769 1134782011468 psiF repeat; Region: PsiF_repeat; pfam07769 1134782011469 alkaline phosphatase; Provisional; Region: PRK10518 1134782011470 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1134782011471 dimer interface [polypeptide binding]; other site 1134782011472 active site 1134782011473 anti-RssB factor; Provisional; Region: PRK10244 1134782011474 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1134782011475 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1134782011476 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1134782011477 Protein of unknown function (DUF2754); Region: DUF2754; pfam10953 1134782011478 Protein of unknown function (DUF2755); Region: DUF2755; pfam10954 1134782011479 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 1134782011480 microcin B17 transporter; Reviewed; Region: PRK11098 1134782011481 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 1134782011482 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1134782011483 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11832 1134782011484 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cd00253 1134782011485 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782011486 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782011487 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS; cd00384 1134782011488 dimer interface [polypeptide binding]; other site 1134782011489 active site 1134782011490 Schiff base residues; other site 1134782011491 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 1134782011492 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 1134782011493 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1134782011494 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782011495 dimer interface [polypeptide binding]; other site 1134782011496 conserved gate region; other site 1134782011497 putative PBP binding loops; other site 1134782011498 ABC-ATPase subunit interface; other site 1134782011499 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 1134782011500 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1134782011501 Walker A/P-loop; other site 1134782011502 ATP binding site [chemical binding]; other site 1134782011503 Q-loop/lid; other site 1134782011504 ABC transporter signature motif; other site 1134782011505 Walker B; other site 1134782011506 D-loop; other site 1134782011507 H-loop/switch region; other site 1134782011508 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 1134782011509 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782011510 substrate binding pocket [chemical binding]; other site 1134782011511 membrane-bound complex binding site; other site 1134782011512 hinge residues; other site 1134782011513 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1134782011514 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1134782011515 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1134782011516 DXD motif; other site 1134782011517 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 1134782011518 putative trimer interface [polypeptide binding]; other site 1134782011519 putative CoA binding site [chemical binding]; other site 1134782011520 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1134782011521 putative metal binding site [ion binding]; other site 1134782011522 putative homodimer interface [polypeptide binding]; other site 1134782011523 putative homotetramer interface [polypeptide binding]; other site 1134782011524 putative homodimer-homodimer interface [polypeptide binding]; other site 1134782011525 putative allosteric switch controlling residues; other site 1134782011526 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1134782011527 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1134782011528 substrate binding site [chemical binding]; other site 1134782011529 catalytic Zn binding site [ion binding]; other site 1134782011530 NAD binding site [chemical binding]; other site 1134782011531 structural Zn binding site [ion binding]; other site 1134782011532 dimer interface [polypeptide binding]; other site 1134782011533 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1134782011534 S-formylglutathione hydrolase; Region: PLN02442 1134782011535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1134782011536 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 1134782011537 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011538 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011539 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 1134782011540 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 1134782011541 active site 1134782011542 catalytic residues [active] 1134782011543 metal binding site [ion binding]; metal-binding site 1134782011544 DmpG-like communication domain; Region: DmpG_comm; pfam07836 1134782011545 acetaldehyde dehydrogenase; Validated; Region: PRK08300 1134782011546 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1134782011547 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 1134782011548 2-keto-4-pentenoate hydratase; Provisional; Region: mhpD; PRK11342 1134782011549 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 1134782011550 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 1134782011551 nucleophilic elbow; other site 1134782011552 catalytic triad; other site 1134782011553 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 1134782011554 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1134782011555 putative active site [active] 1134782011556 Fe(II) binding site [ion binding]; other site 1134782011557 putative dimer interface [polypeptide binding]; other site 1134782011558 putative tetramer interface [polypeptide binding]; other site 1134782011559 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 1134782011560 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1134782011561 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 1134782011562 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1134782011563 Bacterial transcriptional regulator; Region: IclR; pfam01614 1134782011564 lac repressor; Reviewed; Region: lacI; PRK09526 1134782011565 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782011566 DNA binding site [nucleotide binding] 1134782011567 domain linker motif; other site 1134782011568 Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_LacI; cd01574 1134782011569 ligand binding site [chemical binding]; other site 1134782011570 dimerization interface (open form) [polypeptide binding]; other site 1134782011571 dimerization interface (closed form) [polypeptide binding]; other site 1134782011572 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1134782011573 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1134782011574 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1134782011575 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1134782011576 Beta galactosidase small chain; Region: Bgal_small_N; pfam02929 1134782011577 LacY proton/sugar symporter; Region: LacY_symp; pfam01306 1134782011578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011579 putative substrate translocation pore; other site 1134782011580 galactoside O-acetyltransferase; Reviewed; Region: lacA; PRK09527 1134782011581 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1134782011582 active site 1134782011583 substrate binding site [chemical binding]; other site 1134782011584 trimer interface [polypeptide binding]; other site 1134782011585 CoA binding site [chemical binding]; other site 1134782011586 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1134782011587 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782011588 Cyanate lyase [Inorganic ion transport and metabolism]; Region: CynS; COG1513 1134782011589 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 1134782011590 oligomer interface [polypeptide binding]; other site 1134782011591 active site 1134782011592 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1134782011593 active site clefts [active] 1134782011594 zinc binding site [ion binding]; other site 1134782011595 dimer interface [polypeptide binding]; other site 1134782011596 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 1134782011597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782011598 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 1134782011599 dimerization interface [polypeptide binding]; other site 1134782011600 cytosine deaminase; Provisional; Region: PRK09230 1134782011601 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1134782011602 active site 1134782011603 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1134782011604 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1134782011605 Na binding site [ion binding]; other site 1134782011606 putative substrate binding site [chemical binding]; other site 1134782011607 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1134782011608 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1134782011609 acyl-activating enzyme (AAE) consensus motif; other site 1134782011610 putative AMP binding site [chemical binding]; other site 1134782011611 putative active site [active] 1134782011612 putative CoA binding site [chemical binding]; other site 1134782011613 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1134782011614 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1134782011615 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1134782011616 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 1134782011617 dimer interface [polypeptide binding]; other site 1134782011618 active site 1134782011619 citrylCoA binding site [chemical binding]; other site 1134782011620 oxalacetate/citrate binding site [chemical binding]; other site 1134782011621 coenzyme A binding site [chemical binding]; other site 1134782011622 catalytic triad [active] 1134782011623 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1134782011624 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1134782011625 tetramer interface [polypeptide binding]; other site 1134782011626 active site 1134782011627 Mg2+/Mn2+ binding site [ion binding]; other site 1134782011628 propionate catabolism operon regulatory protein PrpR; Provisional; Region: PRK15424 1134782011629 Propionate catabolism activator; Region: PrpR_N; pfam06506 1134782011630 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011631 Walker A motif; other site 1134782011632 ATP binding site [chemical binding]; other site 1134782011633 Walker B motif; other site 1134782011634 arginine finger; other site 1134782011635 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782011636 hypothetical protein; Provisional; Region: PRK09929 1134782011637 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 1134782011638 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1134782011639 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1134782011640 putative NAD(P) binding site [chemical binding]; other site 1134782011641 putative substrate binding site [chemical binding]; other site 1134782011642 catalytic Zn binding site [ion binding]; other site 1134782011643 structural Zn binding site [ion binding]; other site 1134782011644 dimer interface [polypeptide binding]; other site 1134782011645 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782011646 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782011647 TM-ABC transporter signature motif; other site 1134782011648 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782011649 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782011650 TM-ABC transporter signature motif; other site 1134782011651 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1134782011652 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782011653 Walker A/P-loop; other site 1134782011654 ATP binding site [chemical binding]; other site 1134782011655 Q-loop/lid; other site 1134782011656 ABC transporter signature motif; other site 1134782011657 Walker B; other site 1134782011658 D-loop; other site 1134782011659 H-loop/switch region; other site 1134782011660 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782011661 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1134782011662 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1134782011663 ligand binding site [chemical binding]; other site 1134782011664 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1134782011665 putative deaminase; Validated; Region: PRK06846 1134782011666 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1134782011667 active site 1134782011668 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 1134782011669 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1134782011670 putative substrate binding site [chemical binding]; other site 1134782011671 nucleotide binding site [chemical binding]; other site 1134782011672 nucleotide binding site [chemical binding]; other site 1134782011673 homodimer interface [polypeptide binding]; other site 1134782011674 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 1134782011675 Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]; Region: SucD; COG0074 1134782011676 CoA binding domain; Region: CoA_binding; pfam02629 1134782011677 CoA-ligase; Region: Ligase_CoA; pfam00549 1134782011678 Protein of unknown function (DUF2877); Region: DUF2877; pfam11392 1134782011679 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1134782011680 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1134782011681 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1134782011682 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1134782011683 DNA-binding transcriptional activator AllS; Provisional; Region: PRK10094 1134782011684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782011685 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782011686 dimerization interface [polypeptide binding]; other site 1134782011687 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782011688 DNA binding residues [nucleotide binding] 1134782011689 dimerization interface [polypeptide binding]; other site 1134782011690 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782011691 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782011692 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1134782011693 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782011694 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782011695 choline transport protein BetT; Provisional; Region: PRK09928 1134782011696 transcriptional regulator BetI; Validated; Region: PRK00767 1134782011697 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782011698 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1134782011699 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1134782011700 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 1134782011701 tetrameric interface [polypeptide binding]; other site 1134782011702 NAD binding site [chemical binding]; other site 1134782011703 catalytic residues [active] 1134782011704 choline dehydrogenase; Validated; Region: PRK02106 1134782011705 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1134782011706 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1134782011707 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1134782011708 iron-sulfur cluster-binding protein; Region: TIGR00273 1134782011709 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1134782011710 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1134782011711 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1134782011712 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1134782011713 Cysteine-rich domain; Region: CCG; pfam02754 1134782011714 Cysteine-rich domain; Region: CCG; pfam02754 1134782011715 Cupin; Region: Cupin_6; pfam12852 1134782011716 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1134782011717 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782011718 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK08010 1134782011719 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1134782011720 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782011721 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1134782011722 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782011723 Predicted membrane protein [Function unknown]; Region: COG3059 1134782011724 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782011725 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782011726 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782011727 Predicted membrane protein [Function unknown]; Region: COG3059 1134782011728 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1134782011729 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782011730 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 1134782011731 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1134782011732 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1134782011733 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1134782011734 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1134782011735 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1134782011736 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 1134782011737 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1134782011738 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782011739 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782011740 DNA binding residues [nucleotide binding] 1134782011741 putative fimbrial protein TcfA; Provisional; Region: PRK15308 1134782011742 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782011743 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 1134782011744 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 1134782011745 Predicted periplasmic/secreted protein [Function unknown]; Region: COG3477 1134782011746 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 1134782011747 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1134782011748 catalytic loop [active] 1134782011749 iron binding site [ion binding]; other site 1134782011750 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1134782011751 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 1134782011752 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1134782011753 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 1134782011754 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 1134782011755 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1134782011756 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1134782011757 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1134782011758 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1134782011759 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1134782011760 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782011761 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1134782011762 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1134782011763 active site 1134782011764 DNA binding site [nucleotide binding] 1134782011765 Int/Topo IB signature motif; other site 1134782011766 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782011767 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782011768 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782011769 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 1134782011770 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 1134782011771 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1134782011772 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1134782011773 catalytic residues [active] 1134782011774 catalytic nucleophile [active] 1134782011775 Presynaptic Site I dimer interface [polypeptide binding]; other site 1134782011776 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1134782011777 Synaptic Flat tetramer interface [polypeptide binding]; other site 1134782011778 Synaptic Site I dimer interface [polypeptide binding]; other site 1134782011779 Homeodomain-like domain; Region: HTH_23; pfam13384 1134782011780 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1134782011781 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1134782011782 putative catalytic cysteine [active] 1134782011783 gamma-glutamyl kinase; Provisional; Region: PRK05429 1134782011784 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1134782011785 nucleotide binding site [chemical binding]; other site 1134782011786 homotetrameric interface [polypeptide binding]; other site 1134782011787 putative phosphate binding site [ion binding]; other site 1134782011788 putative allosteric binding site; other site 1134782011789 PUA domain; Region: PUA; pfam01472 1134782011790 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1134782011791 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1134782011792 trimer interface [polypeptide binding]; other site 1134782011793 eyelet of channel; other site 1134782011794 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 1134782011795 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 1134782011796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782011797 active site 1134782011798 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1134782011799 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1134782011800 metal binding site [ion binding]; metal-binding site 1134782011801 dimer interface [polypeptide binding]; other site 1134782011802 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 1134782011803 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1134782011804 hypothetical protein; Reviewed; Region: PRK09588 1134782011805 release factor H-coupled RctB family protein; Region: release_rtcB; TIGR03073 1134782011806 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1134782011807 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782011808 Coenzyme A binding pocket [chemical binding]; other site 1134782011809 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1134782011810 active site 1134782011811 DNA polymerase IV; Validated; Region: PRK02406 1134782011812 DNA binding site [nucleotide binding] 1134782011813 hypothetical protein; Validated; Region: PRK06778 1134782011814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1134782011815 ligand binding site [chemical binding]; other site 1134782011816 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; COG1298 1134782011817 FHIPEP family; Region: FHIPEP; pfam00771 1134782011818 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 1134782011819 HicB family; Region: HicB; pfam05534 1134782011820 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782011821 NlpC/P60 family; Region: NLPC_P60; pfam00877 1134782011822 RelB antitoxin; Region: RelB; cl01171 1134782011823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 1134782011824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1134782011825 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1134782011826 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1134782011827 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1134782011828 putative active site [active] 1134782011829 putative dimer interface [polypeptide binding]; other site 1134782011830 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1134782011831 dimer interface [polypeptide binding]; other site 1134782011832 active site 1134782011833 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1134782011834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1134782011835 active site 1134782011836 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1134782011837 C-lysozyme inhibitor; Provisional; Region: PRK09993 1134782011838 C-N hydrolase family amidase; Provisional; Region: PRK10438 1134782011839 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 1134782011840 putative active site [active] 1134782011841 catalytic triad [active] 1134782011842 dimer interface [polypeptide binding]; other site 1134782011843 multimer interface [polypeptide binding]; other site 1134782011844 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 1134782011845 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1134782011846 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782011847 Transposase [DNA replication, recombination, and repair]; Region: COG5433 1134782011848 potential frameshift: common BLAST hit: gi|291281062|ref|YP_003497880.1| transposase yncI 1134782011849 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782011850 RHS protein; Region: RHS; pfam03527 1134782011851 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782011852 PAAR motif; Region: PAAR_motif; cl15808 1134782011853 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011854 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011855 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782011856 RHS Repeat; Region: RHS_repeat; pfam05593 1134782011857 RHS Repeat; Region: RHS_repeat; cl11982 1134782011858 RHS Repeat; Region: RHS_repeat; cl11982 1134782011859 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1134782011860 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1134782011861 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1134782011862 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1134782011863 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1134782011864 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1134782011865 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 1134782011866 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517 1134782011867 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1134782011868 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1134782011869 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1134782011870 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1134782011871 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 1134782011872 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]; Region: COG3456 1134782011873 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 1134782011874 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 1134782011875 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1134782011876 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 1134782011877 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1134782011878 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011879 Walker A motif; other site 1134782011880 ATP binding site [chemical binding]; other site 1134782011881 Walker B motif; other site 1134782011882 arginine finger; other site 1134782011883 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782011884 Walker A motif; other site 1134782011885 ATP binding site [chemical binding]; other site 1134782011886 Walker B motif; other site 1134782011887 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1134782011888 type VI secretion-associated protein, VC_A0118 family; Region: VI_minor_1; TIGR03360 1134782011889 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1134782011890 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1134782011891 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1134782011892 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1134782011893 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1134782011894 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1134782011895 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1134782011896 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1134782011897 ImpA domain protein; Region: DUF3702; pfam12486 1134782011898 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1134782011899 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1134782011900 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1134782011901 active site 1134782011902 catalytic site [active] 1134782011903 substrate binding site [chemical binding]; other site 1134782011904 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1134782011905 RNA/DNA hybrid binding site [nucleotide binding]; other site 1134782011906 active site 1134782011907 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782011908 hydroxyacylglutathione hydrolase; Provisional; Region: PRK10241 1134782011909 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 1134782011910 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782011911 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782011912 catalytic residue [active] 1134782011913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782011914 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1134782011915 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1134782011916 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782011917 S-adenosylmethionine binding site [chemical binding]; other site 1134782011918 hypothetical protein; Provisional; Region: PRK05421 1134782011919 putative catalytic site [active] 1134782011920 putative metal binding site [ion binding]; other site 1134782011921 putative phosphate binding site [ion binding]; other site 1134782011922 putative catalytic site [active] 1134782011923 putative phosphate binding site [ion binding]; other site 1134782011924 putative metal binding site [ion binding]; other site 1134782011925 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1134782011926 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782011927 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 1134782011928 putative effector binding pocket; other site 1134782011929 dimerization interface [polypeptide binding]; other site 1134782011930 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1134782011931 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1134782011932 active site 1134782011933 catalytic tetrad [active] 1134782011934 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 1134782011935 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782011936 active site 1134782011937 motif I; other site 1134782011938 motif II; other site 1134782011939 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1134782011940 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1134782011941 Walker A/P-loop; other site 1134782011942 ATP binding site [chemical binding]; other site 1134782011943 Q-loop/lid; other site 1134782011944 ABC transporter signature motif; other site 1134782011945 Walker B; other site 1134782011946 D-loop; other site 1134782011947 H-loop/switch region; other site 1134782011948 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1134782011949 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782011950 dimer interface [polypeptide binding]; other site 1134782011951 conserved gate region; other site 1134782011952 ABC-ATPase subunit interface; other site 1134782011953 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1134782011954 lipoprotein, YaeC family; Region: TIGR00363 1134782011955 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1134782011956 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1134782011957 homodimer interaction site [polypeptide binding]; other site 1134782011958 cofactor binding site; other site 1134782011959 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1134782011960 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1134782011961 dimer interface [polypeptide binding]; other site 1134782011962 motif 1; other site 1134782011963 active site 1134782011964 motif 2; other site 1134782011965 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1134782011966 putative deacylase active site [active] 1134782011967 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1134782011968 active site 1134782011969 motif 3; other site 1134782011970 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1134782011971 anticodon binding site; other site 1134782011972 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 1134782011973 hypothetical protein; Provisional; Region: PRK11479 1134782011974 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782011975 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782011976 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782011977 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 1134782011978 NlpE N-terminal domain; Region: NlpE; pfam04170 1134782011979 hypothetical protein; Provisional; Region: PRK09256 1134782011980 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1134782011981 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4681 1134782011982 hypothetical protein; Provisional; Region: PRK04964 1134782011983 Rho-binding antiterminator; Provisional; Region: PRK11625 1134782011984 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1134782011985 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1134782011986 Ligand Binding Site [chemical binding]; other site 1134782011987 TilS substrate binding domain; Region: TilS; pfam09179 1134782011988 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1134782011989 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1134782011990 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1134782011991 putative metal binding site [ion binding]; other site 1134782011992 lysine decarboxylase LdcC; Provisional; Region: PRK15399 1134782011993 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1134782011994 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1134782011995 homodimer interface [polypeptide binding]; other site 1134782011996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782011997 catalytic residue [active] 1134782011998 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1134782011999 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1134782012000 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1134782012001 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1134782012002 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1134782012003 putative active site [active] 1134782012004 putative PHP Thumb interface [polypeptide binding]; other site 1134782012005 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1134782012006 generic binding surface II; other site 1134782012007 generic binding surface I; other site 1134782012008 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1134782012009 RNA/DNA hybrid binding site [nucleotide binding]; other site 1134782012010 active site 1134782012011 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1134782012012 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1134782012013 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1134782012014 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1134782012015 active site 1134782012016 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1134782012017 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1134782012018 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1134782012019 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1134782012020 trimer interface [polypeptide binding]; other site 1134782012021 active site 1134782012022 UDP-GlcNAc binding site [chemical binding]; other site 1134782012023 lipid binding site [chemical binding]; lipid-binding site 1134782012024 periplasmic chaperone; Provisional; Region: PRK10780 1134782012025 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1134782012026 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1134782012027 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782012028 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782012029 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782012030 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782012031 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782012032 Surface antigen; Region: Bac_surface_Ag; pfam01103 1134782012033 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1134782012034 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1134782012035 active site 1134782012036 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1134782012037 protein binding site [polypeptide binding]; other site 1134782012038 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1134782012039 putative substrate binding region [chemical binding]; other site 1134782012040 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1134782012041 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1134782012042 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1134782012043 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1134782012044 catalytic residue [active] 1134782012045 putative FPP diphosphate binding site; other site 1134782012046 putative FPP binding hydrophobic cleft; other site 1134782012047 dimer interface [polypeptide binding]; other site 1134782012048 putative IPP diphosphate binding site; other site 1134782012049 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1134782012050 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1134782012051 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1134782012052 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1134782012053 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1134782012054 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1134782012055 hinge region; other site 1134782012056 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1134782012057 putative nucleotide binding site [chemical binding]; other site 1134782012058 uridine monophosphate binding site [chemical binding]; other site 1134782012059 homohexameric interface [polypeptide binding]; other site 1134782012060 elongation factor Ts; Provisional; Region: tsf; PRK09377 1134782012061 UBA/TS-N domain; Region: UBA; pfam00627 1134782012062 Elongation factor TS; Region: EF_TS; pfam00889 1134782012063 Elongation factor TS; Region: EF_TS; pfam00889 1134782012064 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1134782012065 rRNA interaction site [nucleotide binding]; other site 1134782012066 S8 interaction site; other site 1134782012067 putative laminin-1 binding site; other site 1134782012068 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1134782012069 active site 1134782012070 PII uridylyl-transferase; Provisional; Region: PRK05007 1134782012071 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1134782012072 metal binding triad; other site 1134782012073 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1134782012074 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782012075 Zn2+ binding site [ion binding]; other site 1134782012076 Mg2+ binding site [ion binding]; other site 1134782012077 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1134782012078 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1134782012079 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1134782012080 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1134782012081 trimer interface [polypeptide binding]; other site 1134782012082 active site 1134782012083 substrate binding site [chemical binding]; other site 1134782012084 CoA binding site [chemical binding]; other site 1134782012085 hypothetical protein; Provisional; Region: PRK13677 1134782012086 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 1134782012087 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1134782012088 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1134782012089 serine endoprotease; Provisional; Region: PRK10942 1134782012090 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1134782012091 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782012092 protein binding site [polypeptide binding]; other site 1134782012093 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1134782012094 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1134782012095 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1134782012096 Zn2+ binding site [ion binding]; other site 1134782012097 Mg2+ binding site [ion binding]; other site 1134782012098 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1134782012099 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1134782012100 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1134782012101 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1134782012102 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1134782012103 cobalamin binding residues [chemical binding]; other site 1134782012104 putative BtuC binding residues; other site 1134782012105 dimer interface [polypeptide binding]; other site 1134782012106 hypothetical protein; Provisional; Region: PRK10578 1134782012107 UPF0126 domain; Region: UPF0126; pfam03458 1134782012108 UPF0126 domain; Region: UPF0126; pfam03458 1134782012109 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1134782012110 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1134782012111 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1134782012112 Cl- selectivity filter; other site 1134782012113 Cl- binding residues [ion binding]; other site 1134782012114 pore gating glutamate residue; other site 1134782012115 dimer interface [polypeptide binding]; other site 1134782012116 H+/Cl- coupling transport residue; other site 1134782012117 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1134782012118 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1134782012119 inhibitor-cofactor binding pocket; inhibition site 1134782012120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782012121 catalytic residue [active] 1134782012122 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1134782012123 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782012124 ABC-ATPase subunit interface; other site 1134782012125 dimer interface [polypeptide binding]; other site 1134782012126 putative PBP binding regions; other site 1134782012127 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782012128 ABC-ATPase subunit interface; other site 1134782012129 dimer interface [polypeptide binding]; other site 1134782012130 putative PBP binding regions; other site 1134782012131 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1134782012132 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1134782012133 siderophore binding site; other site 1134782012134 iron-hydroxamate transporter ATP-binding subunit; Provisional; Region: PRK10575 1134782012135 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1134782012136 Walker A/P-loop; other site 1134782012137 ATP binding site [chemical binding]; other site 1134782012138 Q-loop/lid; other site 1134782012139 ABC transporter signature motif; other site 1134782012140 Walker B; other site 1134782012141 D-loop; other site 1134782012142 H-loop/switch region; other site 1134782012143 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 1134782012144 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782012145 N-terminal plug; other site 1134782012146 ligand-binding site [chemical binding]; other site 1134782012147 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 1134782012148 Transglycosylase; Region: Transgly; pfam00912 1134782012149 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1134782012150 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1134782012151 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782012152 ATP binding site [chemical binding]; other site 1134782012153 putative Mg++ binding site [ion binding]; other site 1134782012154 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782012155 nucleotide binding region [chemical binding]; other site 1134782012156 ATP-binding site [chemical binding]; other site 1134782012157 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 1134782012158 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1134782012159 2'-5' RNA ligase; Provisional; Region: PRK15124 1134782012160 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1134782012161 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1134782012162 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1134782012163 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 1134782012164 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1134782012165 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1134782012166 active site 1134782012167 nucleotide binding site [chemical binding]; other site 1134782012168 HIGH motif; other site 1134782012169 KMSKS motif; other site 1134782012170 poly(A) polymerase I; Provisional; Region: pcnB; PRK11623 1134782012171 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1134782012172 active site 1134782012173 NTP binding site [chemical binding]; other site 1134782012174 metal binding triad [ion binding]; metal-binding site 1134782012175 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1134782012176 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1134782012177 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1134782012178 catalytic center binding site [active] 1134782012179 ATP binding site [chemical binding]; other site 1134782012180 Fimbrial protein; Region: Fimbrial; cl01416 1134782012181 putative chaperone protein EcpD; Provisional; Region: PRK09926 1134782012182 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782012183 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782012184 putative fimbrial outer membrane usher protein; Provisional; Region: PRK09828 1134782012185 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782012186 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782012187 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782012188 Fimbrial protein; Region: Fimbrial; cl01416 1134782012189 putative fimbrial protein StaE; Provisional; Region: PRK15263 1134782012190 putative fimbrial protein StaF; Provisional; Region: PRK15262 1134782012191 putative fimbrial-like adhesin protein; Provisional; Region: PRK09723 1134782012192 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1134782012193 oligomerization interface [polypeptide binding]; other site 1134782012194 active site 1134782012195 metal binding site [ion binding]; metal-binding site 1134782012196 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1134782012197 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1134782012198 active site 1134782012199 ATP-binding site [chemical binding]; other site 1134782012200 pantoate-binding site; other site 1134782012201 HXXH motif; other site 1134782012202 Uncharacterized conserved protein [Function unknown]; Region: COG5464 1134782012203 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1134782012204 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1134782012205 tetramerization interface [polypeptide binding]; other site 1134782012206 active site 1134782012207 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 1134782012208 putative active site [active] 1134782012209 putative metal binding site [ion binding]; other site 1134782012210 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1134782012211 active pocket/dimerization site; other site 1134782012212 active site 1134782012213 phosphorylation site [posttranslational modification] 1134782012214 inner membrane transport permease; Provisional; Region: PRK15066 1134782012215 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1134782012216 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1134782012217 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1134782012218 Walker A/P-loop; other site 1134782012219 ATP binding site [chemical binding]; other site 1134782012220 Q-loop/lid; other site 1134782012221 ABC transporter signature motif; other site 1134782012222 Walker B; other site 1134782012223 D-loop; other site 1134782012224 H-loop/switch region; other site 1134782012225 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1134782012226 active site clefts [active] 1134782012227 zinc binding site [ion binding]; other site 1134782012228 dimer interface [polypeptide binding]; other site 1134782012229 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1134782012230 active site 1134782012231 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1134782012232 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1134782012233 Trp docking motif [polypeptide binding]; other site 1134782012234 putative active site [active] 1134782012235 multicopper oxidase; Provisional; Region: PRK10965 1134782012236 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1134782012237 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1134782012238 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1134782012239 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1134782012240 spermidine synthase; Provisional; Region: PRK00811 1134782012241 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782012242 S-adenosylmethionine binding site [chemical binding]; other site 1134782012243 S-adenosylmethionine decarboxylase; Provisional; Region: PRK05462 1134782012244 hypothetical protein; Provisional; Region: PRK05248 1134782012245 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1134782012246 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1134782012247 substrate binding site [chemical binding]; other site 1134782012248 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1134782012249 substrate binding site [chemical binding]; other site 1134782012250 ligand binding site [chemical binding]; other site 1134782012251 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 1134782012252 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 1134782012253 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1134782012254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1134782012255 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782012256 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1134782012257 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1134782012258 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1134782012259 E3 interaction surface; other site 1134782012260 lipoyl attachment site [posttranslational modification]; other site 1134782012261 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1134782012262 E3 interaction surface; other site 1134782012263 lipoyl attachment site [posttranslational modification]; other site 1134782012264 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1134782012265 E3 interaction surface; other site 1134782012266 lipoyl attachment site [posttranslational modification]; other site 1134782012267 e3 binding domain; Region: E3_binding; pfam02817 1134782012268 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1134782012269 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1134782012270 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1134782012271 dimer interface [polypeptide binding]; other site 1134782012272 TPP-binding site [chemical binding]; other site 1134782012273 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1134782012274 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782012275 DNA-binding site [nucleotide binding]; DNA binding site 1134782012276 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782012277 aromatic amino acid transporter; Provisional; Region: PRK10238 1134782012278 regulatory protein AmpE; Provisional; Region: PRK10987 1134782012279 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1134782012280 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1134782012281 amidase catalytic site [active] 1134782012282 Zn binding residues [ion binding]; other site 1134782012283 substrate binding site [chemical binding]; other site 1134782012284 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1134782012285 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1134782012286 dimerization interface [polypeptide binding]; other site 1134782012287 active site 1134782012288 putative major pilin subunit; Provisional; Region: PRK10574 1134782012289 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1134782012290 Pilin (bacterial filament); Region: Pilin; pfam00114 1134782012291 hypothetical protein; Provisional; Region: PRK10436 1134782012292 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 1134782012293 Walker A motif; other site 1134782012294 ATP binding site [chemical binding]; other site 1134782012295 Walker B motif; other site 1134782012296 type IV pilin biogenesis protein; Provisional; Region: PRK10573 1134782012297 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1134782012298 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1134782012299 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 1134782012300 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1134782012301 active site 1134782012302 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1134782012303 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1134782012304 CoA-binding site [chemical binding]; other site 1134782012305 ATP-binding [chemical binding]; other site 1134782012306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4582 1134782012307 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1134782012308 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1134782012309 active site 1134782012310 8-oxo-dGMP binding site [chemical binding]; other site 1134782012311 nudix motif; other site 1134782012312 metal binding site [ion binding]; metal-binding site 1134782012313 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1134782012314 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1134782012315 SEC-C motif; Region: SEC-C; pfam02810 1134782012316 SecA regulator SecM; Provisional; Region: PRK02943 1134782012317 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1134782012318 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1134782012319 cell division protein FtsZ; Validated; Region: PRK09330 1134782012320 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1134782012321 nucleotide binding site [chemical binding]; other site 1134782012322 SulA interaction site; other site 1134782012323 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1134782012324 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1134782012325 Cell division protein FtsA; Region: FtsA; pfam14450 1134782012326 cell division protein FtsQ; Provisional; Region: PRK10775 1134782012327 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1134782012328 Cell division protein FtsQ; Region: FtsQ; pfam03799 1134782012329 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1134782012330 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1134782012331 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1134782012332 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1134782012333 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1134782012334 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782012335 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782012336 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1134782012337 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1134782012338 active site 1134782012339 homodimer interface [polypeptide binding]; other site 1134782012340 cell division protein FtsW; Provisional; Region: PRK10774 1134782012341 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1134782012342 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782012343 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782012344 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1134782012345 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1134782012346 Mg++ binding site [ion binding]; other site 1134782012347 putative catalytic motif [active] 1134782012348 putative substrate binding site [chemical binding]; other site 1134782012349 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1134782012350 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1134782012351 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782012352 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782012353 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1134782012354 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1134782012355 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782012356 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782012357 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1134782012358 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1134782012359 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1134782012360 cell division protein FtsL; Provisional; Region: PRK10772 1134782012361 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 1134782012362 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1134782012363 mraZ protein; Region: TIGR00242 1134782012364 MraZ protein; Region: MraZ; pfam02381 1134782012365 MraZ protein; Region: MraZ; pfam02381 1134782012366 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1134782012367 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782012368 DNA binding site [nucleotide binding] 1134782012369 domain linker motif; other site 1134782012370 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1134782012371 dimerization interface [polypeptide binding]; other site 1134782012372 ligand binding site [chemical binding]; other site 1134782012373 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1134782012374 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1134782012375 putative valine binding site [chemical binding]; other site 1134782012376 dimer interface [polypeptide binding]; other site 1134782012377 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1134782012378 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 1134782012379 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1134782012380 PYR/PP interface [polypeptide binding]; other site 1134782012381 dimer interface [polypeptide binding]; other site 1134782012382 TPP binding site [chemical binding]; other site 1134782012383 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782012384 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1134782012385 TPP-binding site [chemical binding]; other site 1134782012386 dimer interface [polypeptide binding]; other site 1134782012387 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1134782012388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782012389 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1134782012390 putative substrate binding pocket [chemical binding]; other site 1134782012391 putative dimerization interface [polypeptide binding]; other site 1134782012392 leu operon leader peptide; Provisional; Region: PRK09925 1134782012393 2-isopropylmalate synthase; Validated; Region: PRK00915 1134782012394 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1134782012395 active site 1134782012396 catalytic residues [active] 1134782012397 metal binding site [ion binding]; metal-binding site 1134782012398 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1134782012399 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1134782012400 tartrate dehydrogenase; Region: TTC; TIGR02089 1134782012401 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1134782012402 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1134782012403 substrate binding site [chemical binding]; other site 1134782012404 ligand binding site [chemical binding]; other site 1134782012405 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1134782012406 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1134782012407 substrate binding site [chemical binding]; other site 1134782012408 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012409 sugar efflux transporter; Region: 2A0120; TIGR00899 1134782012410 putative substrate translocation pore; other site 1134782012411 transcriptional regulator SgrR; Provisional; Region: PRK13626 1134782012412 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1134782012413 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 1134782012414 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1134782012415 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1134782012416 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1134782012417 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782012418 dimer interface [polypeptide binding]; other site 1134782012419 conserved gate region; other site 1134782012420 putative PBP binding loops; other site 1134782012421 ABC-ATPase subunit interface; other site 1134782012422 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782012423 dimer interface [polypeptide binding]; other site 1134782012424 conserved gate region; other site 1134782012425 putative PBP binding loops; other site 1134782012426 ABC-ATPase subunit interface; other site 1134782012427 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1134782012428 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1134782012429 Walker A/P-loop; other site 1134782012430 ATP binding site [chemical binding]; other site 1134782012431 Q-loop/lid; other site 1134782012432 ABC transporter signature motif; other site 1134782012433 Walker B; other site 1134782012434 D-loop; other site 1134782012435 H-loop/switch region; other site 1134782012436 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1134782012437 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1134782012438 DNA-binding transcriptional regulator AraC; Provisional; Region: PRK10572 1134782012439 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1134782012440 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782012441 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782012442 ribulokinase; Provisional; Region: PRK04123 1134782012443 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 1134782012444 N- and C-terminal domain interface [polypeptide binding]; other site 1134782012445 active site 1134782012446 MgATP binding site [chemical binding]; other site 1134782012447 catalytic site [active] 1134782012448 metal binding site [ion binding]; metal-binding site 1134782012449 carbohydrate binding site [chemical binding]; other site 1134782012450 homodimer interface [polypeptide binding]; other site 1134782012451 L-arabinose isomerase; Provisional; Region: PRK02929 1134782012452 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 1134782012453 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 1134782012454 trimer interface [polypeptide binding]; other site 1134782012455 putative substrate binding site [chemical binding]; other site 1134782012456 putative metal binding site [ion binding]; other site 1134782012457 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1134782012458 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1134782012459 intersubunit interface [polypeptide binding]; other site 1134782012460 active site 1134782012461 Zn2+ binding site [ion binding]; other site 1134782012462 DNA polymerase II; Reviewed; Region: PRK05762 1134782012463 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1134782012464 active site 1134782012465 catalytic site [active] 1134782012466 substrate binding site [chemical binding]; other site 1134782012467 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1134782012468 active site 1134782012469 metal-binding site 1134782012470 ATP-dependent helicase HepA; Validated; Region: PRK04914 1134782012471 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782012472 ATP binding site [chemical binding]; other site 1134782012473 putative Mg++ binding site [ion binding]; other site 1134782012474 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782012475 nucleotide binding region [chemical binding]; other site 1134782012476 ATP-binding site [chemical binding]; other site 1134782012477 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1134782012478 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1134782012479 active site 1134782012480 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1134782012481 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1134782012482 putative metal binding site [ion binding]; other site 1134782012483 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1134782012484 HSP70 interaction site [polypeptide binding]; other site 1134782012485 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1134782012486 OstA-like protein; Region: OstA; pfam03968 1134782012487 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1134782012488 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1134782012489 SurA N-terminal domain; Region: SurA_N; pfam09312 1134782012490 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1134782012491 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1134782012492 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1134782012493 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1134782012494 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1134782012495 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1134782012496 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1134782012497 bis(5'-nucleosyl)-tetraphosphatase (symmetrical); Region: apaH; TIGR00668 1134782012498 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1134782012499 active site 1134782012500 metal binding site [ion binding]; metal-binding site 1134782012501 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1134782012502 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1134782012503 folate binding site [chemical binding]; other site 1134782012504 NADP+ binding site [chemical binding]; other site 1134782012505 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 1134782012506 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1134782012507 TrkA-N domain; Region: TrkA_N; pfam02254 1134782012508 glutathione-regulated potassium-efflux system ancillary protein KefF; Provisional; Region: PRK00871 1134782012509 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012510 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1134782012511 putative substrate translocation pore; other site 1134782012512 ferredoxin-like protein FixX; Provisional; Region: PRK15449 1134782012513 putative oxidoreductase FixC; Provisional; Region: PRK10157 1134782012514 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 1134782012515 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF; cd01985 1134782012516 Ligand binding site [chemical binding]; other site 1134782012517 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1134782012518 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1134782012519 Ligand binding site [chemical binding]; other site 1134782012520 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1134782012521 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 1134782012522 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 1134782012523 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1134782012524 active site 1134782012525 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 1134782012526 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1134782012527 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 1134782012528 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1134782012529 acyl-activating enzyme (AAE) consensus motif; other site 1134782012530 putative AMP binding site [chemical binding]; other site 1134782012531 putative active site [active] 1134782012532 putative CoA binding site [chemical binding]; other site 1134782012533 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 1134782012534 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782012535 substrate binding site [chemical binding]; other site 1134782012536 oxyanion hole (OAH) forming residues; other site 1134782012537 trimer interface [polypeptide binding]; other site 1134782012538 carnitine operon protein CaiE; Provisional; Region: PRK13627 1134782012539 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 1134782012540 putative trimer interface [polypeptide binding]; other site 1134782012541 putative metal binding site [ion binding]; other site 1134782012542 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 1134782012543 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1134782012544 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1134782012545 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1134782012546 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1134782012547 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1134782012548 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1134782012549 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1134782012550 IMP binding site; other site 1134782012551 dimer interface [polypeptide binding]; other site 1134782012552 interdomain contacts; other site 1134782012553 partial ornithine binding site; other site 1134782012554 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1134782012555 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1134782012556 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1134782012557 catalytic site [active] 1134782012558 subunit interface [polypeptide binding]; other site 1134782012559 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1134782012560 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1134782012561 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1134782012562 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1134782012563 active site 1134782012564 tetramer interface [polypeptide binding]; other site 1134782012565 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1134782012566 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1134782012567 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1134782012568 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1134782012569 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1134782012570 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1134782012571 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1134782012572 HIGH motif; other site 1134782012573 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1134782012574 active site 1134782012575 KMSKS motif; other site 1134782012576 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1134782012577 tRNA binding surface [nucleotide binding]; other site 1134782012578 anticodon binding site; other site 1134782012579 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1134782012580 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1134782012581 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1134782012582 active site 1134782012583 Riboflavin kinase; Region: Flavokinase; smart00904 1134782012584 Protein of unknown function (DUF2575); Region: DUF2575; pfam10837 1134782012585 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1134782012586 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782012587 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782012588 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1134782012589 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782012590 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1134782012591 putative dimerization interface [polypeptide binding]; other site 1134782012592 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1134782012593 Hok/gef family; Region: HOK_GEF; pfam01848 1134782012594 chaperone protein DnaJ; Provisional; Region: PRK10767 1134782012595 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1134782012596 HSP70 interaction site [polypeptide binding]; other site 1134782012597 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1134782012598 substrate binding site [polypeptide binding]; other site 1134782012599 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1134782012600 Zn binding sites [ion binding]; other site 1134782012601 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1134782012602 dimer interface [polypeptide binding]; other site 1134782012603 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1134782012604 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1134782012605 nucleotide binding site [chemical binding]; other site 1134782012606 NEF interaction site [polypeptide binding]; other site 1134782012607 SBD interface [polypeptide binding]; other site 1134782012608 hypothetical protein; Provisional; Region: PRK10154 1134782012609 hypothetical protein; Provisional; Region: PRK10236 1134782012610 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 1134782012611 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1134782012612 hypothetical protein; Provisional; Region: PRK10659 1134782012613 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1134782012614 MPT binding site; other site 1134782012615 trimer interface [polypeptide binding]; other site 1134782012616 transaldolase-like protein; Provisional; Region: PTZ00411 1134782012617 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1134782012618 active site 1134782012619 dimer interface [polypeptide binding]; other site 1134782012620 catalytic residue [active] 1134782012621 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1134782012622 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1134782012623 hypothetical protein; Validated; Region: PRK02101 1134782012624 Protein of unknown function (DUF2502); Region: DUF2502; pfam10697 1134782012625 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1134782012626 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1134782012627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782012628 catalytic residue [active] 1134782012629 homoserine kinase; Region: thrB; TIGR00191 1134782012630 Protein of unknown function; Region: YhfT; pfam10797 1134782012631 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1134782012632 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1134782012633 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1134782012634 putative catalytic residues [active] 1134782012635 putative nucleotide binding site [chemical binding]; other site 1134782012636 putative aspartate binding site [chemical binding]; other site 1134782012637 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1134782012638 dimer interface [polypeptide binding]; other site 1134782012639 putative threonine allosteric regulatory site; other site 1134782012640 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1134782012641 putative threonine allosteric regulatory site; other site 1134782012642 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1134782012643 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1134782012644 putative RNA methyltransferase; Provisional; Region: PRK10433 1134782012645 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 1134782012646 two-component response regulator; Provisional; Region: PRK11173 1134782012647 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782012648 active site 1134782012649 phosphorylation site [posttranslational modification] 1134782012650 intermolecular recognition site; other site 1134782012651 dimerization interface [polypeptide binding]; other site 1134782012652 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782012653 DNA binding site [nucleotide binding] 1134782012654 Inner membrane protein involved in colicin E2 resistance [Defense mechanisms]; Region: CreD; COG4452 1134782012655 sensory histidine kinase CreC; Provisional; Region: PRK11100 1134782012656 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782012657 dimerization interface [polypeptide binding]; other site 1134782012658 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782012659 dimer interface [polypeptide binding]; other site 1134782012660 phosphorylation site [posttranslational modification] 1134782012661 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782012662 ATP binding site [chemical binding]; other site 1134782012663 Mg2+ binding site [ion binding]; other site 1134782012664 G-X-G motif; other site 1134782012665 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1134782012666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782012667 active site 1134782012668 phosphorylation site [posttranslational modification] 1134782012669 intermolecular recognition site; other site 1134782012670 dimerization interface [polypeptide binding]; other site 1134782012671 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782012672 DNA binding site [nucleotide binding] 1134782012673 hypothetical protein; Provisional; Region: PRK10756 1134782012674 CreA protein; Region: CreA; pfam05981 1134782012675 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1134782012676 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782012677 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1134782012678 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1134782012679 catalytic core [active] 1134782012680 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1134782012681 Trp operon repressor; Provisional; Region: PRK01381 1134782012682 lytic murein transglycosylase; Provisional; Region: PRK11619 1134782012683 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782012684 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782012685 catalytic residue [active] 1134782012686 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1134782012687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782012688 Walker A/P-loop; other site 1134782012689 ATP binding site [chemical binding]; other site 1134782012690 Q-loop/lid; other site 1134782012691 ABC transporter signature motif; other site 1134782012692 Walker B; other site 1134782012693 D-loop; other site 1134782012694 H-loop/switch region; other site 1134782012695 ABC transporter; Region: ABC_tran_2; pfam12848 1134782012696 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1134782012697 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782012698 non-specific DNA binding site [nucleotide binding]; other site 1134782012699 salt bridge; other site 1134782012700 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional; Region: PRK08099 1134782012701 sequence-specific DNA binding site [nucleotide binding]; other site 1134782012702 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 1134782012703 active site 1134782012704 (T/H)XGH motif; other site 1134782012705 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 1134782012706 DNA repair protein RadA; Region: sms; TIGR00416 1134782012707 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1134782012708 Walker A motif/ATP binding site; other site 1134782012709 ATP binding site [chemical binding]; other site 1134782012710 Walker B motif; other site 1134782012711 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1134782012712 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 1134782012713 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782012714 motif II; other site 1134782012715 hypothetical protein; Provisional; Region: PRK11246 1134782012716 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1134782012717 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1134782012718 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1134782012719 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1134782012720 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1134782012721 phosphopentomutase; Provisional; Region: PRK05362 1134782012722 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1134782012723 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1134782012724 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1134782012725 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1134782012726 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 1134782012727 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1134782012728 intersubunit interface [polypeptide binding]; other site 1134782012729 active site 1134782012730 catalytic residue [active] 1134782012731 hypothetical protein; Provisional; Region: PRK10977 1134782012732 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1134782012733 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1134782012734 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782012735 FeS/SAM binding site; other site 1134782012736 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1134782012737 active site 1134782012738 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1134782012739 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1134782012740 active site 1134782012741 nucleophile elbow; other site 1134782012742 periplasmic protein; Provisional; Region: PRK10568 1134782012743 BON domain; Region: BON; pfam04972 1134782012744 BON domain; Region: BON; pfam04972 1134782012745 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1134782012746 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1134782012747 G1 box; other site 1134782012748 putative GEF interaction site [polypeptide binding]; other site 1134782012749 GTP/Mg2+ binding site [chemical binding]; other site 1134782012750 Switch I region; other site 1134782012751 G2 box; other site 1134782012752 G3 box; other site 1134782012753 Switch II region; other site 1134782012754 G4 box; other site 1134782012755 G5 box; other site 1134782012756 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1134782012757 dUMP phosphatase; Provisional; Region: PRK09449 1134782012758 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782012759 motif II; other site 1134782012760 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1134782012761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782012762 Coenzyme A binding pocket [chemical binding]; other site 1134782012763 DNA polymerase III subunit psi; Validated; Region: PRK06856 1134782012764 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1134782012765 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1134782012766 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782012767 S-adenosylmethionine binding site [chemical binding]; other site 1134782012768 Protein of unknown function (DUF1435); Region: DUF1435; pfam07256 1134782012769 ferric iron reductase involved in ferric hydroximate transport; Provisional; Region: PRK10647 1134782012770 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1134782012771 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 1134782012772 DNA-binding transcriptional activator BglJ; Provisional; Region: PRK11475 1134782012773 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782012774 DNA binding residues [nucleotide binding] 1134782012775 dimerization interface [polypeptide binding]; other site 1134782012776 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1134782012777 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1134782012778 DNA binding residues [nucleotide binding] 1134782012779 dimerization interface [polypeptide binding]; other site 1134782012780 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1134782012781 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1134782012782 hypothetical protein; Provisional; Region: PRK09917 1134782012783 primosomal protein DnaI; Provisional; Region: PRK02854 1134782012784 DNA replication protein DnaC; Validated; Region: PRK07952 1134782012785 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782012786 Walker A motif; other site 1134782012787 ATP binding site [chemical binding]; other site 1134782012788 Walker B motif; other site 1134782012789 hypothetical protein; Provisional; Region: PRK11667 1134782012790 phosphoglycerol transferase I; Provisional; Region: PRK03776 1134782012791 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1134782012792 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1134782012793 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 1134782012794 putative NAD(P) binding site [chemical binding]; other site 1134782012795 catalytic Zn binding site [ion binding]; other site 1134782012796 structural Zn binding site [ion binding]; other site 1134782012797 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782012798 DNA-binding site [nucleotide binding]; DNA binding site 1134782012799 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1134782012800 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 1134782012801 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782012802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012803 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782012804 putative substrate translocation pore; other site 1134782012805 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1134782012806 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1134782012807 dimer interface [polypeptide binding]; other site 1134782012808 ligand binding site [chemical binding]; other site 1134782012809 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782012810 dimerization interface [polypeptide binding]; other site 1134782012811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1134782012812 dimer interface [polypeptide binding]; other site 1134782012813 putative CheW interface [polypeptide binding]; other site 1134782012814 carbon starvation protein A; Provisional; Region: PRK15015 1134782012815 Carbon starvation protein CstA; Region: CstA; pfam02554 1134782012816 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1134782012817 Uncharacterized small protein [Function unknown]; Region: COG2879 1134782012818 putative GTP-binding protein YjiA; Provisional; Region: PRK11537 1134782012819 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1134782012820 P-loop, Walker A motif; other site 1134782012821 Base recognition motif; other site 1134782012822 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1134782012823 Uncharacterized conserved protein [Function unknown]; Region: COG1479 1134782012824 Protein of unknown function DUF262; Region: DUF262; pfam03235 1134782012825 Protein of unknown function DUF262; Region: DUF262; pfam03235 1134782012826 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 1134782012827 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 1134782012828 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1134782012829 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782012830 ATP binding site [chemical binding]; other site 1134782012831 putative Mg++ binding site [ion binding]; other site 1134782012832 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1134782012833 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1134782012834 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1134782012835 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1134782012836 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1134782012837 endoribonuclease SymE; Provisional; Region: PRK13605 1134782012838 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1134782012839 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1134782012840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782012841 DNA-binding site [nucleotide binding]; DNA binding site 1134782012842 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782012843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782012844 homodimer interface [polypeptide binding]; other site 1134782012845 catalytic residue [active] 1134782012846 putative transposase; Provisional; Region: PRK09857 1134782012847 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 1134782012848 multidrug efflux system protein MdtM; Provisional; Region: PRK15403 1134782012849 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012850 putative substrate translocation pore; other site 1134782012851 Predicted membrane protein [Function unknown]; Region: COG2733 1134782012852 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 1134782012853 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 1134782012854 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 1134782012855 CoA-substrate-specific enzyme activase, putative; Region: CoA_E_activ; TIGR00241 1134782012856 Protein of unknown function (DUF3343); Region: DUF3343; pfam11823 1134782012857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3204 1134782012858 SdiA-regulated; Region: SdiA-regulated; cd09971 1134782012859 putative active site [active] 1134782012860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782012861 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012862 putative substrate translocation pore; other site 1134782012863 RNA:NAD 2'-phosphotransferase [Translation, ribosomal structure and biogenesis]; Region: KptA; COG1859 1134782012864 RNA 2'-phosphotransferase; Reviewed; Region: PRK00819 1134782012865 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1134782012866 Nucleoside recognition; Region: Gate; pfam07670 1134782012867 hypothetical protein; Provisional; Region: PRK10519 1134782012868 Isoaspartyl dipeptidase hydrolyzes the beta-L-isoaspartyl linkages in dipeptides, as part of the degradative pathway to eliminate proteins with beta-L-isoaspartyl peptide bonds, bonds whereby the beta-group of an aspartate forms the peptide link with the...; Region: Isoaspartyl-dipeptidase; cd01308 1134782012869 isoaspartyl dipeptidase IadA; Region: isoAsp_dipep; TIGR01975 1134782012870 dimer interface [polypeptide binding]; other site 1134782012871 active site 1134782012872 cell density-dependent motility repressor; Provisional; Region: PRK10082 1134782012873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782012874 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1134782012875 DNA replication/recombination/repair protein; Provisional; Region: iraD; PRK14128 1134782012876 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 1134782012877 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1134782012878 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782012879 DNA-binding site [nucleotide binding]; DNA binding site 1134782012880 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782012881 D-mannonate oxidoreductase; Provisional; Region: PRK15037 1134782012882 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1134782012883 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1134782012884 mannonate dehydratase; Region: uxuA; TIGR00695 1134782012885 mannonate dehydratase; Provisional; Region: PRK03906 1134782012886 fructuronate transporter; Provisional; Region: PRK10034 1134782012887 gluconate transporter; Region: gntP; TIGR00791 1134782012888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782012889 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782012890 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782012891 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782012892 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1134782012893 Haemolysin expression modulating protein; Region: HHA; pfam05321 1134782012894 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 1134782012895 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782012896 Protein of unknown function (DUF3279); Region: DUF3279; pfam11682 1134782012897 Transposase; Region: HTH_Tnp_1; pfam01527 1134782012898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782012899 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782012900 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782012901 Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I; Region: DD_cGKI; cl17044 1134782012902 homodimer interface [polypeptide binding]; other site 1134782012903 putative GKAP docking site [polypeptide binding]; other site 1134782012904 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782012905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782012906 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782012907 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782012908 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782012909 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1134782012910 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 1134782012911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1134782012912 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1134782012913 DNA binding residues [nucleotide binding] 1134782012914 fec operon regulator FecR; Reviewed; Region: PRK09774 1134782012915 FecR protein; Region: FecR; pfam04773 1134782012916 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1134782012917 Secretin and TonB N terminus short domain; Region: STN; smart00965 1134782012918 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782012919 N-terminal plug; other site 1134782012920 ligand-binding site [chemical binding]; other site 1134782012921 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 1134782012922 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1134782012923 siderophore binding site; other site 1134782012924 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1134782012925 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782012926 dimer interface [polypeptide binding]; other site 1134782012927 ABC-ATPase subunit interface; other site 1134782012928 putative PBP binding regions; other site 1134782012929 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 1134782012930 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1134782012931 ABC-ATPase subunit interface; other site 1134782012932 dimer interface [polypeptide binding]; other site 1134782012933 putative PBP binding regions; other site 1134782012934 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 1134782012935 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1134782012936 Walker A/P-loop; other site 1134782012937 ATP binding site [chemical binding]; other site 1134782012938 Q-loop/lid; other site 1134782012939 ABC transporter signature motif; other site 1134782012940 Walker B; other site 1134782012941 D-loop; other site 1134782012942 H-loop/switch region; other site 1134782012943 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 1134782012944 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782012945 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1134782012946 putative active site [active] 1134782012947 putative NTP binding site [chemical binding]; other site 1134782012948 putative nucleic acid binding site [nucleotide binding]; other site 1134782012949 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1134782012950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782012951 Transposase; Region: HTH_Tnp_1; cl17663 1134782012952 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 1134782012953 putative active site [active] 1134782012954 putative metal binding site [ion binding]; other site 1134782012955 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1134782012956 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1134782012957 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1134782012958 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1134782012959 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1134782012960 putative acyl-acceptor binding pocket; other site 1134782012961 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1134782012962 Integrase core domain; Region: rve; pfam00665 1134782012963 Integrase core domain; Region: rve_3; pfam13683 1134782012964 BCCT family transporter; Region: BCCT; cl00569 1134782012965 Predicted membrane protein [Function unknown]; Region: COG4325 1134782012966 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 1134782012967 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1134782012968 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782012969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782012970 Transposase; Region: HTH_Tnp_1; pfam01527 1134782012971 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782012972 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782012973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782012974 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782012975 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782012976 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782012977 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1134782012978 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1134782012979 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1134782012980 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1134782012981 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782012982 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782012983 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1134782012984 substrate binding site [chemical binding]; other site 1134782012985 dimer interface [polypeptide binding]; other site 1134782012986 ATP binding site [chemical binding]; other site 1134782012987 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1134782012988 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782012989 putative substrate translocation pore; other site 1134782012990 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 1134782012991 active site 1134782012992 catalytic residues [active] 1134782012993 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1134782012994 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1134782012995 active site 1134782012996 P-loop; other site 1134782012997 phosphorylation site [posttranslational modification] 1134782012998 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782012999 active site 1134782013000 phosphorylation site [posttranslational modification] 1134782013001 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1134782013002 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782013003 DNA binding site [nucleotide binding] 1134782013004 domain linker motif; other site 1134782013005 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1134782013006 putative dimerization interface [polypeptide binding]; other site 1134782013007 putative ligand binding site [chemical binding]; other site 1134782013008 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1134782013009 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1134782013010 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1134782013011 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 1134782013012 putative active site cavity [active] 1134782013013 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 1134782013014 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782013015 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782013016 active site turn [active] 1134782013017 phosphorylation site [posttranslational modification] 1134782013018 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1134782013019 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1134782013020 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1134782013021 putative active site [active] 1134782013022 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782013023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782013024 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782013025 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782013026 Fic family protein [Function unknown]; Region: COG3177 1134782013027 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 1134782013028 Fic/DOC family; Region: Fic; pfam02661 1134782013029 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782013030 salt bridge; other site 1134782013031 non-specific DNA binding site [nucleotide binding]; other site 1134782013032 sequence-specific DNA binding site [nucleotide binding]; other site 1134782013033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782013034 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782013035 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782013036 IS1 transposase; Region: DDE_Tnp_IS1; pfam03400 1134782013037 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 1134782013038 HNH endonuclease; Region: HNH_2; pfam13391 1134782013039 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 1134782013040 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 1134782013041 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1134782013042 Putative helicase; Region: TraI_2; pfam07514 1134782013043 Protein of unknown function (DUF1528); Region: DUF1528; pfam07515 1134782013044 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1134782013045 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 1134782013046 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1134782013047 active site 1134782013048 catalytic residues [active] 1134782013049 DNA binding site [nucleotide binding] 1134782013050 Int/Topo IB signature motif; other site 1134782013051 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1134782013052 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1134782013053 putative NAD(P) binding site [chemical binding]; other site 1134782013054 putative substrate binding site [chemical binding]; other site 1134782013055 catalytic Zn binding site [ion binding]; other site 1134782013056 structural Zn binding site [ion binding]; other site 1134782013057 dimer interface [polypeptide binding]; other site 1134782013058 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1134782013059 ATP-binding site [chemical binding]; other site 1134782013060 Gluconate-6-phosphate binding site [chemical binding]; other site 1134782013061 Shikimate kinase; Region: SKI; pfam01202 1134782013062 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 1134782013063 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 1134782013064 putative NAD(P) binding site [chemical binding]; other site 1134782013065 catalytic Zn binding site [ion binding]; other site 1134782013066 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 1134782013067 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1134782013068 NADP binding site [chemical binding]; other site 1134782013069 homodimer interface [polypeptide binding]; other site 1134782013070 active site 1134782013071 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1134782013072 gluconate transporter; Region: gntP; TIGR00791 1134782013073 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1134782013074 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782013075 DNA binding site [nucleotide binding] 1134782013076 domain linker motif; other site 1134782013077 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1134782013078 putative dimerization interface [polypeptide binding]; other site 1134782013079 putative ligand binding site [chemical binding]; other site 1134782013080 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1134782013081 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1134782013082 Walker A motif; other site 1134782013083 ATP binding site [chemical binding]; other site 1134782013084 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1134782013085 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1134782013086 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 1134782013087 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1134782013088 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1134782013089 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1134782013090 interface (dimer of trimers) [polypeptide binding]; other site 1134782013091 Substrate-binding/catalytic site; other site 1134782013092 Zn-binding sites [ion binding]; other site 1134782013093 DNA polymerase III subunit chi; Validated; Region: PRK05728 1134782013094 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1134782013095 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1134782013096 HIGH motif; other site 1134782013097 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1134782013098 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1134782013099 active site 1134782013100 KMSKS motif; other site 1134782013101 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1134782013102 tRNA binding surface [nucleotide binding]; other site 1134782013103 anticodon binding site; other site 1134782013104 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1134782013105 Predicted membrane protein [Function unknown]; Region: COG4269 1134782013106 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1134782013107 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782013108 Coenzyme A binding pocket [chemical binding]; other site 1134782013109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3076 1134782013110 RNase E inhibitor protein; Provisional; Region: PRK11191 1134782013111 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 1134782013112 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1134782013113 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1134782013114 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782013115 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782013116 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782013117 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782013118 SopA-like central domain; Region: SopA; pfam13981 1134782013119 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1134782013120 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1134782013121 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782013122 oxidoreductase; Provisional; Region: PRK12742 1134782013123 classical (c) SDRs; Region: SDR_c; cd05233 1134782013124 NAD(P) binding site [chemical binding]; other site 1134782013125 active site 1134782013126 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 1134782013127 homotrimer interaction site [polypeptide binding]; other site 1134782013128 putative active site [active] 1134782013129 PyrBI operon leader peptide; Region: PyrBI_leader; pfam08052 1134782013130 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 1134782013131 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1134782013132 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1134782013133 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1134782013134 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1134782013135 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1134782013136 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1134782013137 homotrimer interaction site [polypeptide binding]; other site 1134782013138 putative active site [active] 1134782013139 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782013140 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782013141 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782013142 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1134782013143 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 1134782013144 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1134782013145 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1134782013146 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782013147 motif II; other site 1134782013148 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1134782013149 trehalose repressor; Provisional; Region: treR; PRK09492 1134782013150 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782013151 DNA binding site [nucleotide binding] 1134782013152 domain linker motif; other site 1134782013153 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 1134782013154 dimerization interface [polypeptide binding]; other site 1134782013155 ligand binding site [chemical binding]; other site 1134782013156 PTS system trehalose(maltose)-specific transporter subunits IIBC; Provisional; Region: PRK11007 1134782013157 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782013158 active site turn [active] 1134782013159 phosphorylation site [posttranslational modification] 1134782013160 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782013161 trehalose-6-phosphate hydrolase; Provisional; Region: PRK10933 1134782013162 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1134782013163 Ca binding site [ion binding]; other site 1134782013164 active site 1134782013165 catalytic site [active] 1134782013166 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1134782013167 ATP cone domain; Region: ATP-cone; pfam03477 1134782013168 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1134782013169 effector binding site; other site 1134782013170 active site 1134782013171 Zn binding site [ion binding]; other site 1134782013172 glycine loop; other site 1134782013173 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1134782013174 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782013175 FeS/SAM binding site; other site 1134782013176 cytochrome b562; Provisional; Region: PRK15058 1134782013177 peptidase PmbA; Provisional; Region: PRK11040 1134782013178 hypothetical protein; Provisional; Region: PRK05255 1134782013179 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1134782013180 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1134782013181 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1134782013182 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1134782013183 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1134782013184 AMP binding site [chemical binding]; other site 1134782013185 metal binding site [ion binding]; metal-binding site 1134782013186 active site 1134782013187 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782013188 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782013189 TM-ABC transporter signature motif; other site 1134782013190 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782013191 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782013192 TM-ABC transporter signature motif; other site 1134782013193 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1134782013194 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782013195 Walker A/P-loop; other site 1134782013196 ATP binding site [chemical binding]; other site 1134782013197 Q-loop/lid; other site 1134782013198 ABC transporter signature motif; other site 1134782013199 Walker B; other site 1134782013200 D-loop; other site 1134782013201 H-loop/switch region; other site 1134782013202 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782013203 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 1134782013204 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1134782013205 putative ligand binding site [chemical binding]; other site 1134782013206 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1134782013207 dimer interface [polypeptide binding]; other site 1134782013208 substrate binding site [chemical binding]; other site 1134782013209 metal binding sites [ion binding]; metal-binding site 1134782013210 toxin ChpB; Provisional; Region: PRK09812 1134782013211 antitoxin ChpS; Provisional; Region: PRK11347 1134782013212 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1134782013213 putative active site pocket [active] 1134782013214 dimerization interface [polypeptide binding]; other site 1134782013215 putative catalytic residue [active] 1134782013216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1134782013217 Family of unknown function (DUF490); Region: DUF490; pfam04357 1134782013218 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1134782013219 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1134782013220 Surface antigen; Region: Bac_surface_Ag; pfam01103 1134782013221 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1134782013222 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1134782013223 Domain of unknown function DUF21; Region: DUF21; pfam01595 1134782013224 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1134782013225 Transporter associated domain; Region: CorC_HlyC; smart01091 1134782013226 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 1134782013227 Predicted transcriptional regulator [General function prediction only]; Region: COG3054 1134782013228 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1134782013229 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1134782013230 active site 1134782013231 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 1134782013232 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1134782013233 active site 1134782013234 metal binding site [ion binding]; metal-binding site 1134782013235 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1134782013236 Predicted transcriptional regulators [Transcription]; Region: COG1733 1134782013237 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 1134782013238 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1134782013239 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1134782013240 NADP binding site [chemical binding]; other site 1134782013241 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1134782013242 EamA-like transporter family; Region: EamA; pfam00892 1134782013243 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1134782013244 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1134782013245 Hemerythrin-like domain; Region: Hr-like; cd12108 1134782013246 Fe binding site [ion binding]; other site 1134782013247 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1134782013248 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1134782013249 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1134782013250 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1134782013251 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 1134782013252 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1134782013253 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 1134782013254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 1134782013255 Probable transposase; Region: OrfB_IS605; pfam01385 1134782013256 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 1134782013257 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1134782013258 Protein of unknown function (DUF2686); Region: DUF2686; pfam10887 1134782013259 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1134782013260 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1134782013261 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1134782013262 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1134782013263 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1134782013264 dimer interface [polypeptide binding]; other site 1134782013265 ssDNA binding site [nucleotide binding]; other site 1134782013266 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1134782013267 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1134782013268 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782013269 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 1134782013270 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1134782013271 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1134782013272 intersubunit interface [polypeptide binding]; other site 1134782013273 active site 1134782013274 Zn2+ binding site [ion binding]; other site 1134782013275 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 1134782013276 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1134782013277 AP (apurinic/apyrimidinic) site pocket; other site 1134782013278 DNA interaction; other site 1134782013279 Metal-binding active site; metal-binding site 1134782013280 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1134782013281 active site 1134782013282 dimer interface [polypeptide binding]; other site 1134782013283 magnesium binding site [ion binding]; other site 1134782013284 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782013285 active site 1134782013286 phosphorylation site [posttranslational modification] 1134782013287 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1134782013288 active site 1134782013289 P-loop; other site 1134782013290 phosphorylation site [posttranslational modification] 1134782013291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1134782013292 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 1134782013293 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1134782013294 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1134782013295 transcriptional repressor UlaR; Provisional; Region: PRK13509 1134782013296 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782013297 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782013298 esterase; Provisional; Region: PRK10566 1134782013299 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1134782013300 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1134782013301 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 1134782013302 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1134782013303 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1134782013304 Proteins involved in DNA damage response, similar to the AidB gene product; Region: AidB; cd01154 1134782013305 FAD binding site [chemical binding]; other site 1134782013306 substrate binding site [chemical binding]; other site 1134782013307 catalytic residues [active] 1134782013308 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1134782013309 Predicted integral membrane protein [Function unknown]; Region: COG5463 1134782013310 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 1134782013311 Predicted membrane protein [Function unknown]; Region: COG3766 1134782013312 Protein of unknown function (DUF2491); Region: DUF2491; pfam10679 1134782013313 PspA/IM30 family; Region: PspA_IM30; pfam04012 1134782013314 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; cl01551 1134782013315 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1134782013316 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1134782013317 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1134782013318 exoribonuclease R; Provisional; Region: PRK11642 1134782013319 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 1134782013320 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1134782013321 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1134782013322 RNB domain; Region: RNB; pfam00773 1134782013323 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1134782013324 RNA binding site [nucleotide binding]; other site 1134782013325 Predicted transcriptional regulator [Transcription]; Region: COG1959 1134782013326 transcriptional repressor NsrR; Provisional; Region: PRK11014 1134782013327 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1134782013328 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1134782013329 GDP-binding site [chemical binding]; other site 1134782013330 ACT binding site; other site 1134782013331 IMP binding site; other site 1134782013332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1134782013333 FtsH protease regulator HflC; Provisional; Region: PRK11029 1134782013334 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1134782013335 FtsH protease regulator HflK; Provisional; Region: PRK10930 1134782013336 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1134782013337 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1134782013338 GTPase HflX; Provisional; Region: PRK11058 1134782013339 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1134782013340 HflX GTPase family; Region: HflX; cd01878 1134782013341 G1 box; other site 1134782013342 GTP/Mg2+ binding site [chemical binding]; other site 1134782013343 Switch I region; other site 1134782013344 G2 box; other site 1134782013345 G3 box; other site 1134782013346 Switch II region; other site 1134782013347 G4 box; other site 1134782013348 G5 box; other site 1134782013349 bacterial Hfq-like; Region: Hfq; cd01716 1134782013350 hexamer interface [polypeptide binding]; other site 1134782013351 Sm1 motif; other site 1134782013352 RNA binding site [nucleotide binding]; other site 1134782013353 Sm2 motif; other site 1134782013354 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1134782013355 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1134782013356 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1134782013357 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782013358 ATP binding site [chemical binding]; other site 1134782013359 Mg2+ binding site [ion binding]; other site 1134782013360 G-X-G motif; other site 1134782013361 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1134782013362 ATP binding site [chemical binding]; other site 1134782013363 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1134782013364 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1134782013365 AMIN domain; Region: AMIN; pfam11741 1134782013366 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1134782013367 active site 1134782013368 metal binding site [ion binding]; metal-binding site 1134782013369 ADP-binding protein; Provisional; Region: PRK10646 1134782013370 putative carbohydrate kinase; Provisional; Region: PRK10565 1134782013371 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 1134782013372 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1134782013373 putative substrate binding site [chemical binding]; other site 1134782013374 putative ATP binding site [chemical binding]; other site 1134782013375 epoxyqueuosine reductase; Region: TIGR00276 1134782013376 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1134782013377 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1134782013378 catalytic site [active] 1134782013379 putative active site [active] 1134782013380 putative substrate binding site [chemical binding]; other site 1134782013381 dimer interface [polypeptide binding]; other site 1134782013382 GTPase RsgA; Reviewed; Region: PRK12288 1134782013383 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1134782013384 RNA binding site [nucleotide binding]; other site 1134782013385 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1134782013386 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1134782013387 GTP/Mg2+ binding site [chemical binding]; other site 1134782013388 G4 box; other site 1134782013389 G5 box; other site 1134782013390 G1 box; other site 1134782013391 Switch I region; other site 1134782013392 G2 box; other site 1134782013393 G3 box; other site 1134782013394 Switch II region; other site 1134782013395 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1134782013396 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1134782013397 linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated...; Region: H15; cl00073 1134782013398 DNA-binding site [nucleotide binding]; DNA binding site 1134782013399 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1134782013400 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1134782013401 Protein of unknown function (DUF2645); Region: DUF2645; pfam10840 1134782013402 inner membrane transporter YjeM; Provisional; Region: PRK15238 1134782013403 poxB regulator PoxA; Provisional; Region: PRK09350 1134782013404 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1134782013405 motif 1; other site 1134782013406 dimer interface [polypeptide binding]; other site 1134782013407 active site 1134782013408 motif 2; other site 1134782013409 motif 3; other site 1134782013410 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1134782013411 L-aspartate oxidase; Provisional; Region: PRK06175 1134782013412 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1134782013413 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1134782013414 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1134782013415 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1134782013416 D-subunit interface [polypeptide binding]; other site 1134782013417 Iron-sulfur protein interface; other site 1134782013418 proximal quinone binding site [chemical binding]; other site 1134782013419 distal quinone binding site [chemical binding]; other site 1134782013420 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1134782013421 Iron-sulfur protein interface; other site 1134782013422 proximal quinone binding site [chemical binding]; other site 1134782013423 C-subunit interface; other site 1134782013424 distal quinone binding site; other site 1134782013425 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1134782013426 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1134782013427 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 1134782013428 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1134782013429 multidrug efflux system protein; Provisional; Region: PRK11431 1134782013430 entericidin B membrane lipoprotein; Provisional; Region: PRK10081 1134782013431 entericidin A; Provisional; Region: PRK09810 1134782013432 elongation factor P; Validated; Region: PRK00529 1134782013433 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1134782013434 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1134782013435 RNA binding site [nucleotide binding]; other site 1134782013436 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1134782013437 RNA binding site [nucleotide binding]; other site 1134782013438 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1134782013439 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782013440 FeS/SAM binding site; other site 1134782013441 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1134782013442 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1134782013443 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1134782013444 ring oligomerisation interface [polypeptide binding]; other site 1134782013445 ATP/Mg binding site [chemical binding]; other site 1134782013446 stacking interactions; other site 1134782013447 hinge regions; other site 1134782013448 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1134782013449 oligomerisation interface [polypeptide binding]; other site 1134782013450 mobile loop; other site 1134782013451 roof hairpin; other site 1134782013452 putative transporter; Provisional; Region: PRK11021 1134782013453 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1134782013454 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1134782013455 Aspartase; Region: Aspartase; cd01357 1134782013456 active sites [active] 1134782013457 tetramer interface [polypeptide binding]; other site 1134782013458 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1134782013459 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1134782013460 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 1134782013461 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1134782013462 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1134782013463 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1134782013464 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1134782013465 DsbD alpha interface [polypeptide binding]; other site 1134782013466 catalytic residues [active] 1134782013467 putative transcriptional regulator; Provisional; Region: PRK11640 1134782013468 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782013469 integrase; Provisional; Region: PRK09692 1134782013470 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1134782013471 active site 1134782013472 Int/Topo IB signature motif; other site 1134782013473 potential frameshift: common BLAST hit: gi|218697881|ref|YP_002405548.1| superfamily I DNA helicase 1134782013474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782013475 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782013476 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 1134782013477 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782013478 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1134782013479 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782013480 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782013481 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782013482 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782013483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782013484 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782013485 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782013486 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782013487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782013488 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782013489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782013490 Transposase; Region: HTH_Tnp_1; pfam01527 1134782013491 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782013492 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782013493 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1134782013494 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1134782013495 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782013496 Transposase; Region: HTH_Tnp_1; pfam01527 1134782013497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782013498 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782013499 Transposase; Region: HTH_Tnp_1; cl17663 1134782013500 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782013501 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782013502 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1134782013503 putative active site [active] 1134782013504 putative NTP binding site [chemical binding]; other site 1134782013505 putative nucleic acid binding site [nucleotide binding]; other site 1134782013506 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1134782013507 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1134782013508 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782013509 N-terminal plug; other site 1134782013510 ligand-binding site [chemical binding]; other site 1134782013511 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 1134782013512 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1134782013513 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1134782013514 IucA / IucC family; Region: IucA_IucC; pfam04183 1134782013515 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1134782013516 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1134782013517 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 1134782013518 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1134782013519 IucA / IucC family; Region: IucA_IucC; pfam04183 1134782013520 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1134782013521 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782013522 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1134782013523 putative substrate translocation pore; other site 1134782013524 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782013525 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782013526 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782013527 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782013528 putative transposase OrfB; Reviewed; Region: PHA02517 1134782013529 HTH-like domain; Region: HTH_21; pfam13276 1134782013530 Integrase core domain; Region: rve; pfam00665 1134782013531 Integrase core domain; Region: rve_3; pfam13683 1134782013532 Transposase; Region: HTH_Tnp_1; cl17663 1134782013533 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782013534 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782013535 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 1134782013536 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1134782013537 DNA-binding interface [nucleotide binding]; DNA binding site 1134782013538 Integrase core domain; Region: rve; pfam00665 1134782013539 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782013540 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782013541 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1134782013542 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1134782013543 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782013544 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782013545 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782013546 Integrase core domain; Region: rve; pfam00665 1134782013547 Integrase core domain; Region: rve_3; cl15866 1134782013548 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1134782013549 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782013550 putative active site [active] 1134782013551 putative NTP binding site [chemical binding]; other site 1134782013552 putative nucleic acid binding site [nucleotide binding]; other site 1134782013553 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1134782013554 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782013555 Transposase; Region: HTH_Tnp_1; cl17663 1134782013556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782013557 Antirestriction protein; Region: Antirestrict; pfam03230 1134782013558 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1134782013559 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1134782013560 MPN+ (JAMM) motif; other site 1134782013561 Zinc-binding site [ion binding]; other site 1134782013562 Protein of unknown function (DUF987); Region: DUF987; pfam06174 1134782013563 YagB/YeeU/YfjZ family; Region: YagB_YeeU_YfjZ; pfam06154 1134782013564 Protein of unknown function (DUF1219); Region: DUF1219; pfam06755 1134782013565 Enterobacterial protein of unknown function (DUF957); Region: DUF957; pfam06117 1134782013566 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1134782013567 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 1134782013568 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782013569 DNA binding site [nucleotide binding] 1134782013570 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 1134782013571 lysine decarboxylase CadA; Provisional; Region: PRK15400 1134782013572 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1134782013573 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1134782013574 homodimer interface [polypeptide binding]; other site 1134782013575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782013576 catalytic residue [active] 1134782013577 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1134782013578 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1134782013579 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782013580 putative substrate translocation pore; other site 1134782013581 POT family; Region: PTR2; pfam00854 1134782013582 lysyl-tRNA synthetase; Reviewed; Region: PRK12445 1134782013583 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1134782013584 dimer interface [polypeptide binding]; other site 1134782013585 putative anticodon binding site; other site 1134782013586 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1134782013587 motif 1; other site 1134782013588 active site 1134782013589 motif 2; other site 1134782013590 motif 3; other site 1134782013591 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1134782013592 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1134782013593 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1134782013594 Uncharacterized conserved protein [Function unknown]; Region: COG3592 1134782013595 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1134782013596 PAS domain; Region: PAS; smart00091 1134782013597 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782013598 ATP binding site [chemical binding]; other site 1134782013599 Mg2+ binding site [ion binding]; other site 1134782013600 G-X-G motif; other site 1134782013601 DNA-binding transcriptional activator DcuR; Provisional; Region: PRK10430 1134782013602 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782013603 active site 1134782013604 phosphorylation site [posttranslational modification] 1134782013605 intermolecular recognition site; other site 1134782013606 dimerization interface [polypeptide binding]; other site 1134782013607 Transcriptional regulator; Region: CitT; pfam12431 1134782013608 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1134782013609 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1134782013610 fumarate hydratase; Provisional; Region: PRK15389 1134782013611 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1134782013612 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1134782013613 hypothetical protein; Provisional; Region: PRK09867 1134782013614 melibiose:sodium symporter; Provisional; Region: PRK10429 1134782013615 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1134782013616 alpha-galactosidase; Provisional; Region: PRK15076 1134782013617 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1134782013618 NAD binding site [chemical binding]; other site 1134782013619 sugar binding site [chemical binding]; other site 1134782013620 divalent metal binding site [ion binding]; other site 1134782013621 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1134782013622 dimer interface [polypeptide binding]; other site 1134782013623 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 1134782013624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782013625 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782013626 arginine decarboxylase; Provisional; Region: PRK15029 1134782013627 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1134782013628 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1134782013629 homodimer interface [polypeptide binding]; other site 1134782013630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782013631 catalytic residue [active] 1134782013632 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1134782013633 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782013634 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782013635 arginine:agmatin antiporter; Provisional; Region: PRK10644 1134782013636 putative metal dependent hydrolase; Provisional; Region: PRK11598 1134782013637 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1134782013638 Sulfatase; Region: Sulfatase; pfam00884 1134782013639 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1134782013640 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782013641 active site 1134782013642 phosphorylation site [posttranslational modification] 1134782013643 intermolecular recognition site; other site 1134782013644 dimerization interface [polypeptide binding]; other site 1134782013645 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782013646 DNA binding site [nucleotide binding] 1134782013647 sensor protein BasS/PmrB; Provisional; Region: PRK10755 1134782013648 HAMP domain; Region: HAMP; pfam00672 1134782013649 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782013650 dimer interface [polypeptide binding]; other site 1134782013651 phosphorylation site [posttranslational modification] 1134782013652 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782013653 ATP binding site [chemical binding]; other site 1134782013654 Mg2+ binding site [ion binding]; other site 1134782013655 G-X-G motif; other site 1134782013656 proline/glycine betaine transporter; Provisional; Region: PRK10642 1134782013657 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782013658 putative substrate translocation pore; other site 1134782013659 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 1134782013660 YjcZ-like protein; Region: YjcZ; pfam13990 1134782013661 hypothetical protein; Provisional; Region: PRK09866 1134782013662 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1134782013663 G1 box; other site 1134782013664 GTP/Mg2+ binding site [chemical binding]; other site 1134782013665 G2 box; other site 1134782013666 Switch I region; other site 1134782013667 G3 box; other site 1134782013668 Switch II region; other site 1134782013669 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 1134782013670 G2 box; other site 1134782013671 Switch I region; other site 1134782013672 G3 box; other site 1134782013673 Switch II region; other site 1134782013674 G4 box; other site 1134782013675 G5 box; other site 1134782013676 hypothetical protein; Provisional; Region: PRK10220 1134782013677 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1134782013678 PhnA protein; Region: PhnA; pfam03831 1134782013679 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 1134782013680 dimer interface [polypeptide binding]; other site 1134782013681 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1134782013682 phosphonate/organophosphate ester transporter subunit; Provisional; Region: PRK09984 1134782013683 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 1134782013684 Walker A/P-loop; other site 1134782013685 ATP binding site [chemical binding]; other site 1134782013686 Q-loop/lid; other site 1134782013687 ABC transporter signature motif; other site 1134782013688 Walker B; other site 1134782013689 D-loop; other site 1134782013690 H-loop/switch region; other site 1134782013691 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 1134782013692 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782013693 substrate binding pocket [chemical binding]; other site 1134782013694 membrane-bound complex binding site; other site 1134782013695 hinge residues; other site 1134782013696 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 1134782013697 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782013698 dimer interface [polypeptide binding]; other site 1134782013699 conserved gate region; other site 1134782013700 putative PBP binding loops; other site 1134782013701 ABC-ATPase subunit interface; other site 1134782013702 phosphonate metabolism transcriptional regulator PhnF; Provisional; Region: PRK10079 1134782013703 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782013704 DNA-binding site [nucleotide binding]; DNA binding site 1134782013705 UTRA domain; Region: UTRA; pfam07702 1134782013706 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 1134782013707 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnH; COG3625 1134782013708 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 1134782013709 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 1134782013710 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 1134782013711 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1134782013712 Walker A/P-loop; other site 1134782013713 ATP binding site [chemical binding]; other site 1134782013714 Q-loop/lid; other site 1134782013715 ABC transporter signature motif; other site 1134782013716 Walker B; other site 1134782013717 D-loop; other site 1134782013718 H-loop/switch region; other site 1134782013719 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1134782013720 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 1134782013721 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1134782013722 Walker A/P-loop; other site 1134782013723 ATP binding site [chemical binding]; other site 1134782013724 Q-loop/lid; other site 1134782013725 ABC transporter signature motif; other site 1134782013726 Walker B; other site 1134782013727 D-loop; other site 1134782013728 H-loop/switch region; other site 1134782013729 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 1134782013730 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1134782013731 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1134782013732 active site 1134782013733 ribose 1,5-bisphosphokinase; Provisional; Region: PRK10078 1134782013734 AAA domain; Region: AAA_18; pfam13238 1134782013735 active site 1134782013736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782013737 Coenzyme A binding pocket [chemical binding]; other site 1134782013738 carbon-phosphorus lyase complex accessory protein; Provisional; Region: phnP; PRK11244 1134782013739 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1134782013740 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 1134782013741 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1134782013742 multidrug resistance protein MdtN; Provisional; Region: PRK10476 1134782013743 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1134782013744 HlyD family secretion protein; Region: HlyD_3; pfam13437 1134782013745 multidrug efflux system protein MdtO; Provisional; Region: PRK11427 1134782013746 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1134782013747 putative outer membrane efflux protein MdtP; Provisional; Region: PRK09915 1134782013748 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782013749 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782013750 molybdopterin cofactor binding site; other site 1134782013751 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1134782013752 molybdopterin cofactor binding site; other site 1134782013753 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1134782013754 Sel1-like repeats; Region: SEL1; smart00671 1134782013755 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1134782013756 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1134782013757 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1134782013758 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1134782013759 binding surface 1134782013760 TPR motif; other site 1134782013761 formate-dependent nitrite reductase complex subunit NrfF; Provisional; Region: PRK10144 1134782013762 heme lyase subunit NrfE; Provisional; Region: PRK10369 1134782013763 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 1134782013764 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1134782013765 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1134782013766 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1134782013767 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1134782013768 acetyl-CoA synthetase; Provisional; Region: PRK00174 1134782013769 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1134782013770 active site 1134782013771 CoA binding site [chemical binding]; other site 1134782013772 acyl-activating enzyme (AAE) consensus motif; other site 1134782013773 AMP binding site [chemical binding]; other site 1134782013774 acetate binding site [chemical binding]; other site 1134782013775 Predicted membrane protein [Function unknown]; Region: COG3162 1134782013776 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1134782013777 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1134782013778 Na binding site [ion binding]; other site 1134782013779 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 1134782013780 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 1134782013781 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1134782013782 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1134782013783 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1134782013784 redox-sensitivie transcriptional activator SoxR; Provisional; Region: PRK15002 1134782013785 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 1134782013786 DNA binding residues [nucleotide binding] 1134782013787 dimer interface [polypeptide binding]; other site 1134782013788 [2Fe-2S] cluster binding site [ion binding]; other site 1134782013789 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1134782013790 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782013791 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1134782013792 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1134782013793 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1134782013794 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1134782013795 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1134782013796 dimer interface [polypeptide binding]; other site 1134782013797 ssDNA binding site [nucleotide binding]; other site 1134782013798 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1134782013799 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1134782013800 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1134782013801 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1134782013802 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1134782013803 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1134782013804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1134782013805 Uncharacterized protein family UPF0047; Region: UPF0047; cl00439 1134782013806 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782013807 active site 1134782013808 motif I; other site 1134782013809 motif II; other site 1134782013810 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1134782013811 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1134782013812 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782013813 homodimer interface [polypeptide binding]; other site 1134782013814 catalytic residue [active] 1134782013815 alanine racemase; Reviewed; Region: alr; PRK00053 1134782013816 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1134782013817 active site 1134782013818 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1134782013819 substrate binding site [chemical binding]; other site 1134782013820 catalytic residues [active] 1134782013821 dimer interface [polypeptide binding]; other site 1134782013822 replicative DNA helicase; Provisional; Region: PRK08006 1134782013823 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1134782013824 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1134782013825 Walker A motif; other site 1134782013826 ATP binding site [chemical binding]; other site 1134782013827 Walker B motif; other site 1134782013828 DNA binding loops [nucleotide binding] 1134782013829 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1134782013830 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1134782013831 NADP binding site [chemical binding]; other site 1134782013832 dimer interface [polypeptide binding]; other site 1134782013833 phage shock protein G; Reviewed; Region: pspG; PRK09459 1134782013834 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1134782013835 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1134782013836 FMN binding site [chemical binding]; other site 1134782013837 active site 1134782013838 catalytic residues [active] 1134782013839 substrate binding site [chemical binding]; other site 1134782013840 Protein of unknown function (DUF2713); Region: DUF2713; pfam10897 1134782013841 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1134782013842 metal binding site 2 [ion binding]; metal-binding site 1134782013843 putative DNA binding helix; other site 1134782013844 metal binding site 1 [ion binding]; metal-binding site 1134782013845 dimer interface [polypeptide binding]; other site 1134782013846 structural Zn2+ binding site [ion binding]; other site 1134782013847 hypothetical protein; Provisional; Region: PRK10428 1134782013848 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1134782013849 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1134782013850 LexA repressor; Validated; Region: PRK00215 1134782013851 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1134782013852 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782013853 Catalytic site [active] 1134782013854 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1134782013855 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1134782013856 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1134782013857 putative acyl-acceptor binding pocket; other site 1134782013858 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1134782013859 UbiA prenyltransferase family; Region: UbiA; pfam01040 1134782013860 chorismate pyruvate lyase; Provisional; Region: ubiC; PRK11655 1134782013861 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 1134782013862 SopA-like central domain; Region: SopA; pfam13981 1134782013863 hypothetical protein; Validated; Region: PRK09718 1134782013864 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1134782013865 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1134782013866 trimer interface; other site 1134782013867 sugar binding site [chemical binding]; other site 1134782013868 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1134782013869 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1134782013870 Walker A/P-loop; other site 1134782013871 ATP binding site [chemical binding]; other site 1134782013872 Q-loop/lid; other site 1134782013873 ABC transporter signature motif; other site 1134782013874 Walker B; other site 1134782013875 D-loop; other site 1134782013876 H-loop/switch region; other site 1134782013877 TOBE domain; Region: TOBE_2; pfam08402 1134782013878 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1134782013879 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 1134782013880 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1134782013881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782013882 dimer interface [polypeptide binding]; other site 1134782013883 conserved gate region; other site 1134782013884 putative PBP binding loops; other site 1134782013885 ABC-ATPase subunit interface; other site 1134782013886 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1134782013887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782013888 dimer interface [polypeptide binding]; other site 1134782013889 conserved gate region; other site 1134782013890 putative PBP binding loops; other site 1134782013891 ABC-ATPase subunit interface; other site 1134782013892 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 1134782013893 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782013894 putative substrate translocation pore; other site 1134782013895 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782013896 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1134782013897 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1134782013898 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1134782013899 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1134782013900 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1134782013901 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1134782013902 active site 1134782013903 dimer interface [polypeptide binding]; other site 1134782013904 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1134782013905 dimer interface [polypeptide binding]; other site 1134782013906 active site 1134782013907 aspartate kinase III; Validated; Region: PRK09084 1134782013908 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 1134782013909 nucleotide binding site [chemical binding]; other site 1134782013910 putative catalytic residues [active] 1134782013911 aspartate binding site [chemical binding]; other site 1134782013912 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1134782013913 lysine allosteric regulatory site; other site 1134782013914 dimer interface [polypeptide binding]; other site 1134782013915 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1134782013916 dimer interface [polypeptide binding]; other site 1134782013917 Zeta toxin; Region: Zeta_toxin; pfam06414 1134782013918 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 1134782013919 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1134782013920 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1134782013921 hypothetical protein; Provisional; Region: PRK10515 1134782013922 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 1134782013923 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1134782013924 RNA binding surface [nucleotide binding]; other site 1134782013925 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 1134782013926 probable active site [active] 1134782013927 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1134782013928 active site pocket [active] 1134782013929 oxyanion hole [active] 1134782013930 catalytic triad [active] 1134782013931 active site nucleophile [active] 1134782013932 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1134782013933 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1134782013934 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1134782013935 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1134782013936 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1134782013937 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1134782013938 substrate binding pocket [chemical binding]; other site 1134782013939 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1134782013940 B12 binding site [chemical binding]; other site 1134782013941 cobalt ligand [ion binding]; other site 1134782013942 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1134782013943 transcriptional repressor IclR; Provisional; Region: PRK11569 1134782013944 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1134782013945 Bacterial transcriptional regulator; Region: IclR; pfam01614 1134782013946 ShET2 enterotoxin, N-terminal region; Region: Toxin_15; pfam07906 1134782013947 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1134782013948 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 1134782013949 isocitrate lyase; Provisional; Region: PRK15063 1134782013950 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 1134782013951 tetramer interface [polypeptide binding]; other site 1134782013952 active site 1134782013953 Mg2+/Mn2+ binding site [ion binding]; other site 1134782013954 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 1134782013955 malate synthase A; Region: malate_syn_A; TIGR01344 1134782013956 active site 1134782013957 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1134782013958 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1134782013959 proposed active site lysine [active] 1134782013960 conserved cys residue [active] 1134782013961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1134782013962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782013963 Coenzyme A binding pocket [chemical binding]; other site 1134782013964 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1134782013965 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1134782013966 purine monophosphate binding site [chemical binding]; other site 1134782013967 dimer interface [polypeptide binding]; other site 1134782013968 putative catalytic residues [active] 1134782013969 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1134782013970 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1134782013971 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1134782013972 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1134782013973 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1134782013974 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 1134782013975 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782013976 active site 1134782013977 phosphorylation site [posttranslational modification] 1134782013978 intermolecular recognition site; other site 1134782013979 dimerization interface [polypeptide binding]; other site 1134782013980 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782013981 Walker A motif; other site 1134782013982 ATP binding site [chemical binding]; other site 1134782013983 Walker B motif; other site 1134782013984 arginine finger; other site 1134782013985 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782013986 sensor protein ZraS; Provisional; Region: PRK10364 1134782013987 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782013988 dimer interface [polypeptide binding]; other site 1134782013989 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782013990 ATP binding site [chemical binding]; other site 1134782013991 Mg2+ binding site [ion binding]; other site 1134782013992 G-X-G motif; other site 1134782013993 zinc resistance protein; Provisional; Region: zraP; PRK11546 1134782013994 dimer interface [polypeptide binding]; other site 1134782013995 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 1134782013996 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1134782013997 IHF dimer interface [polypeptide binding]; other site 1134782013998 IHF - DNA interface [nucleotide binding]; other site 1134782013999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 1134782014000 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1134782014001 Active_site [active] 1134782014002 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1134782014003 substrate binding site [chemical binding]; other site 1134782014004 active site 1134782014005 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1134782014006 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1134782014007 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1134782014008 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1134782014009 putative NADH binding site [chemical binding]; other site 1134782014010 putative active site [active] 1134782014011 nudix motif; other site 1134782014012 putative metal binding site [ion binding]; other site 1134782014013 Regulator of sigma D [Transcription]; Region: Rsd; COG3160 1134782014014 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1134782014015 ThiC-associated domain; Region: ThiC-associated; pfam13667 1134782014016 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1134782014017 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1134782014018 thiamine phosphate binding site [chemical binding]; other site 1134782014019 active site 1134782014020 pyrophosphate binding site [ion binding]; other site 1134782014021 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1134782014022 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 1134782014023 ATP binding site [chemical binding]; other site 1134782014024 substrate interface [chemical binding]; other site 1134782014025 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1134782014026 thiS-thiF/thiG interaction site; other site 1134782014027 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 1134782014028 ThiS interaction site; other site 1134782014029 putative active site [active] 1134782014030 tetramer interface [polypeptide binding]; other site 1134782014031 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1134782014032 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782014033 FeS/SAM binding site; other site 1134782014034 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1134782014035 stationary phase growth adaptation protein; Provisional; Region: PRK09717 1134782014036 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1134782014037 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1134782014038 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1134782014039 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1134782014040 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1134782014041 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1134782014042 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1134782014043 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1134782014044 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1134782014045 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1134782014046 DNA binding site [nucleotide binding] 1134782014047 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1134782014048 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1134782014049 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1134782014050 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1134782014051 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1134782014052 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1134782014053 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1134782014054 RPB3 interaction site [polypeptide binding]; other site 1134782014055 RPB1 interaction site [polypeptide binding]; other site 1134782014056 RPB11 interaction site [polypeptide binding]; other site 1134782014057 RPB10 interaction site [polypeptide binding]; other site 1134782014058 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1134782014059 core dimer interface [polypeptide binding]; other site 1134782014060 peripheral dimer interface [polypeptide binding]; other site 1134782014061 L10 interface [polypeptide binding]; other site 1134782014062 L11 interface [polypeptide binding]; other site 1134782014063 putative EF-Tu interaction site [polypeptide binding]; other site 1134782014064 putative EF-G interaction site [polypeptide binding]; other site 1134782014065 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1134782014066 23S rRNA interface [nucleotide binding]; other site 1134782014067 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1134782014068 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1134782014069 mRNA/rRNA interface [nucleotide binding]; other site 1134782014070 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1134782014071 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1134782014072 23S rRNA interface [nucleotide binding]; other site 1134782014073 L7/L12 interface [polypeptide binding]; other site 1134782014074 putative thiostrepton binding site; other site 1134782014075 L25 interface [polypeptide binding]; other site 1134782014076 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1134782014077 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1134782014078 putative homodimer interface [polypeptide binding]; other site 1134782014079 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1134782014080 heterodimer interface [polypeptide binding]; other site 1134782014081 homodimer interface [polypeptide binding]; other site 1134782014082 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1134782014083 elongation factor Tu; Reviewed; Region: PRK00049 1134782014084 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1134782014085 G1 box; other site 1134782014086 GEF interaction site [polypeptide binding]; other site 1134782014087 GTP/Mg2+ binding site [chemical binding]; other site 1134782014088 Switch I region; other site 1134782014089 G2 box; other site 1134782014090 G3 box; other site 1134782014091 Switch II region; other site 1134782014092 G4 box; other site 1134782014093 G5 box; other site 1134782014094 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1134782014095 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1134782014096 Antibiotic Binding Site [chemical binding]; other site 1134782014097 potential protein location (hypothetical protein O3M_23885 [Escherichia coli O104:H4 str. 2009EL-2050]) that overlaps RNA (tRNA-Y) 1134782014098 pantothenate kinase; Provisional; Region: PRK05439 1134782014099 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1134782014100 ATP-binding site [chemical binding]; other site 1134782014101 CoA-binding site [chemical binding]; other site 1134782014102 Mg2+-binding site [ion binding]; other site 1134782014103 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1134782014104 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1134782014105 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1134782014106 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1134782014107 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1134782014108 FAD binding domain; Region: FAD_binding_4; pfam01565 1134782014109 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1134782014110 glutamate racemase; Provisional; Region: PRK00865 1134782014111 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 1134782014112 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1134782014113 N-terminal plug; other site 1134782014114 ligand-binding site [chemical binding]; other site 1134782014115 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1134782014116 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782014117 S-adenosylmethionine binding site [chemical binding]; other site 1134782014118 hypothetical protein; Provisional; Region: PRK11056 1134782014119 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1134782014120 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1134782014121 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1134782014122 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1134782014123 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1134782014124 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1134782014125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782014126 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1134782014127 dimerization interface [polypeptide binding]; other site 1134782014128 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014129 D-galactonate transporter; Region: 2A0114; TIGR00893 1134782014130 putative substrate translocation pore; other site 1134782014131 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 1134782014132 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 1134782014133 putative active site pocket [active] 1134782014134 putative metal binding site [ion binding]; other site 1134782014135 argininosuccinate lyase; Provisional; Region: PRK04833 1134782014136 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1134782014137 active sites [active] 1134782014138 tetramer interface [polypeptide binding]; other site 1134782014139 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 1134782014140 nucleotide binding site [chemical binding]; other site 1134782014141 N-acetyl-L-glutamate binding site [chemical binding]; other site 1134782014142 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1134782014143 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1134782014144 acetylornithine deacetylase; Provisional; Region: PRK05111 1134782014145 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1134782014146 metal binding site [ion binding]; metal-binding site 1134782014147 putative dimer interface [polypeptide binding]; other site 1134782014148 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1134782014149 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1134782014150 hypothetical protein; Provisional; Region: PRK10649 1134782014151 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1134782014152 Sulfatase; Region: Sulfatase; pfam00884 1134782014153 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782014154 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782014155 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782014156 active site 1134782014157 P-loop; other site 1134782014158 phosphorylation site [posttranslational modification] 1134782014159 pyruvate formate lyase II activase; Provisional; Region: PRK10076 1134782014160 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 1134782014161 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1134782014162 dimer interface [polypeptide binding]; other site 1134782014163 active site 1134782014164 glycine loop; other site 1134782014165 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782014166 active site 1134782014167 P-loop; other site 1134782014168 phosphorylation site [posttranslational modification] 1134782014169 putative PTS system fructose-like transporter subunit EIIC; Provisional; Region: PRK10478 1134782014170 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1134782014171 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1134782014172 dimerization domain swap beta strand [polypeptide binding]; other site 1134782014173 regulatory protein interface [polypeptide binding]; other site 1134782014174 active site 1134782014175 regulatory phosphorylation site [posttranslational modification]; other site 1134782014176 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1134782014177 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1134782014178 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1134782014179 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1134782014180 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782014181 active site 1134782014182 phosphorylation site [posttranslational modification] 1134782014183 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1134782014184 active site 1134782014185 intersubunit interactions; other site 1134782014186 catalytic residue [active] 1134782014187 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1134782014188 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1134782014189 dimer interface [polypeptide binding]; other site 1134782014190 active site 1134782014191 metal binding site [ion binding]; metal-binding site 1134782014192 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782014193 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3738 1134782014194 EamA-like transporter family; Region: EamA; pfam00892 1134782014195 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1134782014196 EamA-like transporter family; Region: EamA; pfam00892 1134782014197 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1134782014198 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 1134782014199 heme binding site [chemical binding]; other site 1134782014200 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1134782014201 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1134782014202 FAD binding site [chemical binding]; other site 1134782014203 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1134782014204 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1134782014205 putative catalytic residues [active] 1134782014206 putative nucleotide binding site [chemical binding]; other site 1134782014207 putative aspartate binding site [chemical binding]; other site 1134782014208 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 1134782014209 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1134782014210 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1134782014211 cystathionine gamma-synthase; Provisional; Region: PRK08045 1134782014212 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1134782014213 homodimer interface [polypeptide binding]; other site 1134782014214 substrate-cofactor binding pocket; other site 1134782014215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782014216 catalytic residue [active] 1134782014217 Met Repressor, MetJ. MetJ is a bacterial regulatory protein that uses S-adenosylmethionine (SAM) as a corepressor to regulate the production of Methionine. MetJ binds arrays of two to five adjacent copies of an eight base-pair 'metbox'...; Region: Met_repressor_MetJ; cd00490 1134782014218 dimerization interface [polypeptide binding]; other site 1134782014219 DNA binding site [nucleotide binding] 1134782014220 corepressor binding sites; other site 1134782014221 potential frameshift: common BLAST hit: gi|254795943|ref|YP_003080780.1| peptidoglycan peptidase 1134782014222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782014223 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782014224 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782014225 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782014226 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782014227 PAAR motif; Region: PAAR_motif; cl15808 1134782014228 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782014229 RHS Repeat; Region: RHS_repeat; pfam05593 1134782014230 RHS Repeat; Region: RHS_repeat; pfam05593 1134782014231 RHS Repeat; Region: RHS_repeat; cl11982 1134782014232 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 1134782014233 RHS Repeat; Region: RHS_repeat; pfam05593 1134782014234 RHS Repeat; Region: RHS_repeat; pfam05593 1134782014235 RHS protein; Region: RHS; pfam03527 1134782014236 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 1134782014237 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 1134782014238 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1134782014239 primosome assembly protein PriA; Validated; Region: PRK05580 1134782014240 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782014241 ATP binding site [chemical binding]; other site 1134782014242 putative Mg++ binding site [ion binding]; other site 1134782014243 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1134782014244 ATP-binding site [chemical binding]; other site 1134782014245 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782014246 DNA binding site [nucleotide binding] 1134782014247 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1134782014248 domain linker motif; other site 1134782014249 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1134782014250 dimerization interface [polypeptide binding]; other site 1134782014251 ligand binding site [chemical binding]; other site 1134782014252 essential cell division protein FtsN; Provisional; Region: PRK10927 1134782014253 cell division protein FtsN; Provisional; Region: PRK12757 1134782014254 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1134782014255 active site 1134782014256 HslU subunit interaction site [polypeptide binding]; other site 1134782014257 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1134782014258 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782014259 Walker A motif; other site 1134782014260 ATP binding site [chemical binding]; other site 1134782014261 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1134782014262 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1134782014263 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Region: menA; TIGR00751 1134782014264 UbiA prenyltransferase family; Region: UbiA; pfam01040 1134782014265 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1134782014266 septal ring assembly protein ZapB; Provisional; Region: PRK15422 1134782014267 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1134782014268 amphipathic channel; other site 1134782014269 Asn-Pro-Ala signature motifs; other site 1134782014270 glycerol kinase; Provisional; Region: glpK; PRK00047 1134782014271 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1134782014272 N- and C-terminal domain interface [polypeptide binding]; other site 1134782014273 active site 1134782014274 MgATP binding site [chemical binding]; other site 1134782014275 catalytic site [active] 1134782014276 metal binding site [ion binding]; metal-binding site 1134782014277 glycerol binding site [chemical binding]; other site 1134782014278 homotetramer interface [polypeptide binding]; other site 1134782014279 homodimer interface [polypeptide binding]; other site 1134782014280 FBP binding site [chemical binding]; other site 1134782014281 protein IIAGlc interface [polypeptide binding]; other site 1134782014282 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1134782014283 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1134782014284 putative active site [active] 1134782014285 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1134782014286 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1134782014287 FAD binding pocket [chemical binding]; other site 1134782014288 FAD binding motif [chemical binding]; other site 1134782014289 phosphate binding motif [ion binding]; other site 1134782014290 beta-alpha-beta structure motif; other site 1134782014291 NAD binding pocket [chemical binding]; other site 1134782014292 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1134782014293 Ligand Binding Site [chemical binding]; other site 1134782014294 hypothetical protein; Provisional; Region: PRK09981 1134782014295 Predicted membrane protein [Function unknown]; Region: COG3152 1134782014296 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 1134782014297 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1134782014298 triosephosphate isomerase; Provisional; Region: PRK14567 1134782014299 substrate binding site [chemical binding]; other site 1134782014300 dimer interface [polypeptide binding]; other site 1134782014301 catalytic triad [active] 1134782014302 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 1134782014303 sulfate transporter subunit; Provisional; Region: PRK10752 1134782014304 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1134782014305 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1134782014306 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1134782014307 active site 1134782014308 ADP/pyrophosphate binding site [chemical binding]; other site 1134782014309 dimerization interface [polypeptide binding]; other site 1134782014310 allosteric effector site; other site 1134782014311 fructose-1,6-bisphosphate binding site; other site 1134782014312 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 1134782014313 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1134782014314 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1134782014315 dimer interface [polypeptide binding]; other site 1134782014316 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1134782014317 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782014318 active site 1134782014319 intermolecular recognition site; other site 1134782014320 dimerization interface [polypeptide binding]; other site 1134782014321 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1134782014322 DNA binding site [nucleotide binding] 1134782014323 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1134782014324 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1134782014325 dimerization interface [polypeptide binding]; other site 1134782014326 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782014327 dimer interface [polypeptide binding]; other site 1134782014328 phosphorylation site [posttranslational modification] 1134782014329 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782014330 ATP binding site [chemical binding]; other site 1134782014331 Mg2+ binding site [ion binding]; other site 1134782014332 G-X-G motif; other site 1134782014333 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1134782014334 MOSC domain; Region: MOSC; pfam03473 1134782014335 3-alpha domain; Region: 3-alpha; pfam03475 1134782014336 2-keto-3-deoxygluconate transporter; Region: kdgT; TIGR00793 1134782014337 superoxide dismutase; Provisional; Region: PRK10925 1134782014338 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1134782014339 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1134782014340 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 1134782014341 RhaT L-rhamnose-proton symporter family protein; Region: RhaT; TIGR00776 1134782014342 transcriptional activator RhaR; Provisional; Region: PRK13500 1134782014343 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1134782014344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782014345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782014346 transcriptional activator RhaS; Provisional; Region: PRK13503 1134782014347 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1134782014348 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782014349 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782014350 L-rhamnulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1134782014351 N- and C-terminal domain interface [polypeptide binding]; other site 1134782014352 active site 1134782014353 putative catalytic site [active] 1134782014354 metal binding site [ion binding]; metal-binding site 1134782014355 ATP binding site [chemical binding]; other site 1134782014356 rhamnulokinase; Provisional; Region: rhaB; PRK10640 1134782014357 carbohydrate binding site [chemical binding]; other site 1134782014358 L-rhamnose isomerase; Provisional; Region: PRK01076 1134782014359 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 1134782014360 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1134782014361 intersubunit interface [polypeptide binding]; other site 1134782014362 active site 1134782014363 Zn2+ binding site [ion binding]; other site 1134782014364 L-rhamnose 1-epimerase; Region: YiiL_rotase; TIGR02625 1134782014365 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782014366 active site 1134782014367 phosphorylation site [posttranslational modification] 1134782014368 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 1134782014369 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1134782014370 active site 1134782014371 P-loop; other site 1134782014372 phosphorylation site [posttranslational modification] 1134782014373 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 1134782014374 putative peptidase; Provisional; Region: PRK09864 1134782014375 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1134782014376 oligomer interface [polypeptide binding]; other site 1134782014377 active site 1134782014378 metal binding site [ion binding]; metal-binding site 1134782014379 putative frv operon regulatory protein; Provisional; Region: PRK09863 1134782014380 HTH domain; Region: HTH_11; pfam08279 1134782014381 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1134782014382 active site 1134782014383 phosphorylation site [posttranslational modification] 1134782014384 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 1134782014385 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1134782014386 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782014387 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1134782014388 molybdopterin cofactor binding site; other site 1134782014389 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1134782014390 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1134782014391 molybdopterin cofactor binding site; other site 1134782014392 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1134782014393 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1134782014394 formate dehydrogenase-O subunit gamma; Provisional; Region: PRK10639 1134782014395 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1134782014396 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1134782014397 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1134782014398 Protein of unknown function (DUF3521); Region: DUF3521; pfam12035 1134782014399 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1134782014400 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1134782014401 non-specific DNA binding site [nucleotide binding]; other site 1134782014402 salt bridge; other site 1134782014403 sequence-specific DNA binding site [nucleotide binding]; other site 1134782014404 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 1134782014405 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 1134782014406 substrate binding pocket [chemical binding]; other site 1134782014407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1134782014408 Coenzyme A binding pocket [chemical binding]; other site 1134782014409 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1134782014410 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1134782014411 putative active site [active] 1134782014412 dimerization interface [polypeptide binding]; other site 1134782014413 putative tRNAtyr binding site [nucleotide binding]; other site 1134782014414 hypothetical protein; Reviewed; Region: PRK01637 1134782014415 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1134782014416 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782014417 motif II; other site 1134782014418 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 1134782014419 active site 1134782014420 catalytic residues [active] 1134782014421 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014422 metabolite-proton symporter; Region: 2A0106; TIGR00883 1134782014423 putative substrate translocation pore; other site 1134782014424 benzoate transport; Region: 2A0115; TIGR00895 1134782014425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014426 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014427 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1134782014428 putative oxidoreductase; Provisional; Region: PRK10083 1134782014429 NAD(P) binding site [chemical binding]; other site 1134782014430 Class I aldolases; Region: Aldolase_Class_I; cl17187 1134782014431 catalytic residue [active] 1134782014432 NADH-dependent gamma-hydroxybutyrate dehydrogenase; Provisional; Region: PRK15461 1134782014433 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1134782014434 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782014435 Ribokinase-like subgroup B. Found in bacteria and plants, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_B; cd01945 1134782014436 substrate binding site [chemical binding]; other site 1134782014437 ATP binding site [chemical binding]; other site 1134782014438 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1134782014439 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1134782014440 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1134782014441 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014442 putative substrate translocation pore; other site 1134782014443 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1134782014444 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1134782014445 transcriptional regulator protein; Region: phnR; TIGR03337 1134782014446 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782014447 DNA-binding site [nucleotide binding]; DNA binding site 1134782014448 UTRA domain; Region: UTRA; pfam07702 1134782014449 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1134782014450 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1134782014451 G1 box; other site 1134782014452 putative GEF interaction site [polypeptide binding]; other site 1134782014453 GTP/Mg2+ binding site [chemical binding]; other site 1134782014454 Switch I region; other site 1134782014455 G2 box; other site 1134782014456 G3 box; other site 1134782014457 Switch II region; other site 1134782014458 G4 box; other site 1134782014459 G5 box; other site 1134782014460 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1134782014461 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1134782014462 glutamine synthetase; Provisional; Region: glnA; PRK09469 1134782014463 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1134782014464 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1134782014465 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1134782014466 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1134782014467 putative active site [active] 1134782014468 heme pocket [chemical binding]; other site 1134782014469 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1134782014470 dimer interface [polypeptide binding]; other site 1134782014471 phosphorylation site [posttranslational modification] 1134782014472 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1134782014473 ATP binding site [chemical binding]; other site 1134782014474 Mg2+ binding site [ion binding]; other site 1134782014475 G-X-G motif; other site 1134782014476 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1134782014477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1134782014478 active site 1134782014479 phosphorylation site [posttranslational modification] 1134782014480 intermolecular recognition site; other site 1134782014481 dimerization interface [polypeptide binding]; other site 1134782014482 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782014483 Walker A motif; other site 1134782014484 ATP binding site [chemical binding]; other site 1134782014485 Walker B motif; other site 1134782014486 arginine finger; other site 1134782014487 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1134782014488 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1134782014489 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782014490 FeS/SAM binding site; other site 1134782014491 HemN C-terminal domain; Region: HemN_C; pfam06969 1134782014492 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3078 1134782014493 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1134782014494 G1 box; other site 1134782014495 GTP/Mg2+ binding site [chemical binding]; other site 1134782014496 Switch I region; other site 1134782014497 G2 box; other site 1134782014498 G3 box; other site 1134782014499 Switch II region; other site 1134782014500 G4 box; other site 1134782014501 G5 box; other site 1134782014502 DNA polymerase I; Provisional; Region: PRK05755 1134782014503 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1134782014504 active site 1134782014505 metal binding site 1 [ion binding]; metal-binding site 1134782014506 putative 5' ssDNA interaction site; other site 1134782014507 metal binding site 3; metal-binding site 1134782014508 metal binding site 2 [ion binding]; metal-binding site 1134782014509 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1134782014510 putative DNA binding site [nucleotide binding]; other site 1134782014511 putative metal binding site [ion binding]; other site 1134782014512 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1134782014513 active site 1134782014514 catalytic site [active] 1134782014515 substrate binding site [chemical binding]; other site 1134782014516 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1134782014517 active site 1134782014518 DNA binding site [nucleotide binding] 1134782014519 catalytic site [active] 1134782014520 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1134782014521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1134782014522 putative acyl-acceptor binding pocket; other site 1134782014523 hypothetical protein; Provisional; Region: PRK11367 1134782014524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1134782014525 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1134782014526 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1134782014527 catalytic residues [active] 1134782014528 hinge region; other site 1134782014529 alpha helical domain; other site 1134782014530 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1134782014531 serine/threonine protein kinase; Provisional; Region: PRK11768 1134782014532 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1134782014533 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1134782014534 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1134782014535 GTP binding site; other site 1134782014536 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1134782014537 Walker A motif; other site 1134782014538 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 1134782014539 potassium transporter; Provisional; Region: PRK10750 1134782014540 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1134782014541 hypothetical protein; Provisional; Region: PRK11568 1134782014542 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1134782014543 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1134782014544 proline dipeptidase; Provisional; Region: PRK13607 1134782014545 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1134782014546 active site 1134782014547 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1134782014548 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1134782014549 substrate binding site [chemical binding]; other site 1134782014550 oxyanion hole (OAH) forming residues; other site 1134782014551 trimer interface [polypeptide binding]; other site 1134782014552 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1134782014553 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1134782014554 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1134782014555 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1134782014556 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1134782014557 dimer interface [polypeptide binding]; other site 1134782014558 active site 1134782014559 FMN reductase; Validated; Region: fre; PRK08051 1134782014560 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1134782014561 FAD binding pocket [chemical binding]; other site 1134782014562 FAD binding motif [chemical binding]; other site 1134782014563 phosphate binding motif [ion binding]; other site 1134782014564 beta-alpha-beta structure motif; other site 1134782014565 NAD binding pocket [chemical binding]; other site 1134782014566 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 1134782014567 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1134782014568 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1134782014569 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 1134782014570 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1134782014571 active site 1134782014572 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 1134782014573 sec-independent translocase; Provisional; Region: PRK01770 1134782014574 sec-independent translocase; Provisional; Region: tatB; PRK00404 1134782014575 twin arginine translocase protein A; Provisional; Region: tatA; PRK03554 1134782014576 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 1134782014577 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1134782014578 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1134782014579 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1134782014580 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1134782014581 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1134782014582 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782014583 S-adenosylmethionine binding site [chemical binding]; other site 1134782014584 DNA recombination protein RmuC; Provisional; Region: PRK10361 1134782014585 RmuC family; Region: RmuC; pfam02646 1134782014586 uridine phosphorylase; Provisional; Region: PRK11178 1134782014587 uridine phosphorylase; Region: Uridine-psphlse; TIGR01718 1134782014588 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1134782014589 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 1134782014590 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1134782014591 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1134782014592 THF binding site; other site 1134782014593 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1134782014594 substrate binding site [chemical binding]; other site 1134782014595 THF binding site; other site 1134782014596 zinc-binding site [ion binding]; other site 1134782014597 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1134782014598 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782014599 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1134782014600 putative dimerization interface [polypeptide binding]; other site 1134782014601 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1134782014602 EamA-like transporter family; Region: EamA; pfam00892 1134782014603 putative hydrolase; Provisional; Region: PRK10976 1134782014604 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782014605 active site 1134782014606 motif I; other site 1134782014607 motif II; other site 1134782014608 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782014609 lysophospholipase L2; Provisional; Region: PRK10749 1134782014610 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1134782014611 homoserine/homoserine lactone efflux protein; Provisional; Region: rhtB; PRK10520 1134782014612 threonine efflux system; Provisional; Region: PRK10229 1134782014613 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1134782014614 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782014615 ATP binding site [chemical binding]; other site 1134782014616 putative Mg++ binding site [ion binding]; other site 1134782014617 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782014618 nucleotide binding region [chemical binding]; other site 1134782014619 ATP-binding site [chemical binding]; other site 1134782014620 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1134782014621 Helicase and RNase D C-terminal; Region: HRDC; smart00341 1134782014622 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 1134782014623 dimerization interface [polypeptide binding]; other site 1134782014624 substrate binding site [chemical binding]; other site 1134782014625 active site 1134782014626 calcium binding site [ion binding]; other site 1134782014627 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1134782014628 CoenzymeA binding site [chemical binding]; other site 1134782014629 subunit interaction site [polypeptide binding]; other site 1134782014630 PHB binding site; other site 1134782014631 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1134782014632 EamA-like transporter family; Region: EamA; cl17759 1134782014633 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1134782014634 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085 1134782014635 Protein of unknown function (DUF3289); Region: DUF3289; cl11840 1134782014636 Enterobacterial putative membrane protein (DUF943); Region: DUF943; pfam06092 1134782014637 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1134782014638 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1134782014639 Cl binding site [ion binding]; other site 1134782014640 oligomer interface [polypeptide binding]; other site 1134782014641 Predicted periplasmic protein [Function unknown]; Region: COG3698 1134782014642 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1134782014643 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1134782014644 Part of AAA domain; Region: AAA_19; pfam13245 1134782014645 Family description; Region: UvrD_C_2; pfam13538 1134782014646 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1134782014647 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782014648 motif II; other site 1134782014649 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1134782014650 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1134782014651 active site 1134782014652 DNA binding site [nucleotide binding] 1134782014653 Int/Topo IB signature motif; other site 1134782014654 hypothetical protein; Provisional; Region: PRK10963 1134782014655 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1134782014656 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1134782014657 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1134782014658 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1134782014659 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 1134782014660 DKNYY family; Region: DKNYY; pfam13644 1134782014661 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1134782014662 putative iron binding site [ion binding]; other site 1134782014663 Adenylate cyclase [Nucleotide transport and metabolism]; Region: CyaA; COG3072 1134782014664 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1134782014665 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1134782014666 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1134782014667 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1134782014668 domain interfaces; other site 1134782014669 active site 1134782014670 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1134782014671 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1134782014672 active site 1134782014673 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1134782014674 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1134782014675 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 1134782014676 HemY protein N-terminus; Region: HemY_N; pfam07219 1134782014677 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1134782014678 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1134782014679 FeS/SAM binding site; other site 1134782014680 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1134782014681 putative transport protein YifK; Provisional; Region: PRK10746 1134782014682 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1134782014683 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1134782014684 putative common antigen polymerase; Provisional; Region: PRK02975 1134782014685 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; pfam07429 1134782014686 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1134782014687 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1134782014688 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1134782014689 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1134782014690 inhibitor-cofactor binding pocket; inhibition site 1134782014691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782014692 catalytic residue [active] 1134782014693 TDP-fucosamine acetyltransferase; Provisional; Region: PRK10975 1134782014694 Coenzyme A binding pocket [chemical binding]; other site 1134782014695 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1134782014696 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1134782014697 substrate binding site; other site 1134782014698 tetramer interface; other site 1134782014699 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 1134782014700 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1134782014701 NAD binding site [chemical binding]; other site 1134782014702 substrate binding site [chemical binding]; other site 1134782014703 homodimer interface [polypeptide binding]; other site 1134782014704 active site 1134782014705 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1134782014706 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1134782014707 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1134782014708 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1134782014709 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1134782014710 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1134782014711 active site 1134782014712 homodimer interface [polypeptide binding]; other site 1134782014713 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1134782014714 Chain length determinant protein; Region: Wzz; pfam02706 1134782014715 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase; Provisional; Region: PRK15119 1134782014716 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1134782014717 Mg++ binding site [ion binding]; other site 1134782014718 putative catalytic motif [active] 1134782014719 substrate binding site [chemical binding]; other site 1134782014720 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1134782014721 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1134782014722 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1134782014723 RNA binding site [nucleotide binding]; other site 1134782014724 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1134782014725 multimer interface [polypeptide binding]; other site 1134782014726 Walker A motif; other site 1134782014727 ATP binding site [chemical binding]; other site 1134782014728 Walker B motif; other site 1134782014729 putative rho operon leader peptide; Provisional; Region: PRK09979 1134782014730 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1134782014731 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1134782014732 catalytic residues [active] 1134782014733 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1134782014734 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1134782014735 ATP binding site [chemical binding]; other site 1134782014736 Mg++ binding site [ion binding]; other site 1134782014737 motif III; other site 1134782014738 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782014739 nucleotide binding region [chemical binding]; other site 1134782014740 ATP-binding site [chemical binding]; other site 1134782014741 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1134782014742 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1134782014743 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1134782014744 Part of AAA domain; Region: AAA_19; pfam13245 1134782014745 Family description; Region: UvrD_C_2; pfam13538 1134782014746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3692 1134782014747 peptidyl-prolyl cis-trans isomerase C; Provisional; Region: PRK15441 1134782014748 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1134782014749 ketol-acid reductoisomerase; Validated; Region: PRK05225 1134782014750 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1134782014751 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1134782014752 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1134782014753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782014754 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1134782014755 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 1134782014756 putative dimerization interface [polypeptide binding]; other site 1134782014757 threonine dehydratase; Reviewed; Region: PRK09224 1134782014758 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1134782014759 tetramer interface [polypeptide binding]; other site 1134782014760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1134782014761 catalytic residue [active] 1134782014762 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1134782014763 putative Ile/Val binding site [chemical binding]; other site 1134782014764 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1134782014765 putative Ile/Val binding site [chemical binding]; other site 1134782014766 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1134782014767 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1134782014768 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1134782014769 homodimer interface [polypeptide binding]; other site 1134782014770 substrate-cofactor binding pocket; other site 1134782014771 catalytic residue [active] 1134782014772 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1134782014773 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1134782014774 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1134782014775 PYR/PP interface [polypeptide binding]; other site 1134782014776 dimer interface [polypeptide binding]; other site 1134782014777 TPP binding site [chemical binding]; other site 1134782014778 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1134782014779 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1134782014780 TPP-binding site [chemical binding]; other site 1134782014781 dimer interface [polypeptide binding]; other site 1134782014782 putative ATP-dependent protease; Provisional; Region: PRK09862 1134782014783 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1134782014784 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782014785 Walker A motif; other site 1134782014786 ATP binding site [chemical binding]; other site 1134782014787 Walker B motif; other site 1134782014788 arginine finger; other site 1134782014789 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1134782014790 hypothetical protein; Provisional; Region: PRK11027 1134782014791 transcriptional regulator HdfR; Provisional; Region: PRK03601 1134782014792 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782014793 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1134782014794 dimerization interface [polypeptide binding]; other site 1134782014795 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1134782014796 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1134782014797 DNA-binding site [nucleotide binding]; DNA binding site 1134782014798 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1134782014799 putative transporter; Provisional; Region: PRK10504 1134782014800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014801 putative substrate translocation pore; other site 1134782014802 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014803 transcriptional repressor RbsR; Provisional; Region: PRK10423 1134782014804 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1134782014805 DNA binding site [nucleotide binding] 1134782014806 domain linker motif; other site 1134782014807 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1134782014808 dimerization interface [polypeptide binding]; other site 1134782014809 ligand binding site [chemical binding]; other site 1134782014810 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1134782014811 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1134782014812 substrate binding site [chemical binding]; other site 1134782014813 dimer interface [polypeptide binding]; other site 1134782014814 ATP binding site [chemical binding]; other site 1134782014815 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1134782014816 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1134782014817 ligand binding site [chemical binding]; other site 1134782014818 dimerization interface [polypeptide binding]; other site 1134782014819 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1134782014820 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1134782014821 TM-ABC transporter signature motif; other site 1134782014822 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1134782014823 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1134782014824 Walker A/P-loop; other site 1134782014825 ATP binding site [chemical binding]; other site 1134782014826 Q-loop/lid; other site 1134782014827 ABC transporter signature motif; other site 1134782014828 Walker B; other site 1134782014829 D-loop; other site 1134782014830 H-loop/switch region; other site 1134782014831 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1134782014832 D-ribose pyranase; Provisional; Region: PRK11797 1134782014833 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 1134782014834 potassium uptake protein; Region: kup; TIGR00794 1134782014835 regulatory ATPase RavA; Provisional; Region: PRK13531 1134782014836 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1134782014837 Walker A motif; other site 1134782014838 ATP binding site [chemical binding]; other site 1134782014839 Walker B motif; other site 1134782014840 arginine finger; other site 1134782014841 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 1134782014842 hypothetical protein; Provisional; Region: yieM; PRK10997 1134782014843 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1134782014844 metal ion-dependent adhesion site (MIDAS); other site 1134782014845 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 1134782014846 dimer interface [polypeptide binding]; other site 1134782014847 active site 1134782014848 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1134782014849 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1134782014850 putative DNA binding site [nucleotide binding]; other site 1134782014851 putative Zn2+ binding site [ion binding]; other site 1134782014852 AsnC family; Region: AsnC_trans_reg; pfam01037 1134782014853 FMN-binding protein MioC; Provisional; Region: PRK09004 1134782014854 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1134782014855 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1134782014856 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1134782014857 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1134782014858 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782014859 S-adenosylmethionine binding site [chemical binding]; other site 1134782014860 F0F1 ATP synthase subunit I; Validated; Region: PRK08049 1134782014861 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1134782014862 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1134782014863 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1134782014864 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1134782014865 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1134782014866 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1134782014867 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1134782014868 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1134782014869 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1134782014870 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1134782014871 beta subunit interaction interface [polypeptide binding]; other site 1134782014872 Walker A motif; other site 1134782014873 ATP binding site [chemical binding]; other site 1134782014874 Walker B motif; other site 1134782014875 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1134782014876 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1134782014877 core domain interface [polypeptide binding]; other site 1134782014878 delta subunit interface [polypeptide binding]; other site 1134782014879 epsilon subunit interface [polypeptide binding]; other site 1134782014880 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1134782014881 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1134782014882 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1134782014883 alpha subunit interaction interface [polypeptide binding]; other site 1134782014884 Walker A motif; other site 1134782014885 ATP binding site [chemical binding]; other site 1134782014886 Walker B motif; other site 1134782014887 inhibitor binding site; inhibition site 1134782014888 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1134782014889 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1134782014890 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1134782014891 gamma subunit interface [polypeptide binding]; other site 1134782014892 epsilon subunit interface [polypeptide binding]; other site 1134782014893 LBP interface [polypeptide binding]; other site 1134782014894 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1134782014895 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1134782014896 Substrate binding site; other site 1134782014897 Mg++ binding site; other site 1134782014898 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1134782014899 active site 1134782014900 substrate binding site [chemical binding]; other site 1134782014901 CoA binding site [chemical binding]; other site 1134782014902 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1134782014903 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1134782014904 glutaminase active site [active] 1134782014905 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1134782014906 dimer interface [polypeptide binding]; other site 1134782014907 active site 1134782014908 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1134782014909 dimer interface [polypeptide binding]; other site 1134782014910 active site 1134782014911 fimbrial protein; Provisional; Region: lpfA; PRK15289 1134782014912 fimbrial chaperone protein; Provisional; Region: lfpB; PRK15290 1134782014913 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782014914 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782014915 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1134782014916 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782014917 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782014918 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782014919 Fimbrial protein; Region: Fimbrial; cl01416 1134782014920 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1134782014921 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1134782014922 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782014923 dimer interface [polypeptide binding]; other site 1134782014924 conserved gate region; other site 1134782014925 putative PBP binding loops; other site 1134782014926 ABC-ATPase subunit interface; other site 1134782014927 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1134782014928 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1134782014929 dimer interface [polypeptide binding]; other site 1134782014930 conserved gate region; other site 1134782014931 putative PBP binding loops; other site 1134782014932 ABC-ATPase subunit interface; other site 1134782014933 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1134782014934 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1134782014935 Walker A/P-loop; other site 1134782014936 ATP binding site [chemical binding]; other site 1134782014937 Q-loop/lid; other site 1134782014938 ABC transporter signature motif; other site 1134782014939 Walker B; other site 1134782014940 D-loop; other site 1134782014941 H-loop/switch region; other site 1134782014942 transcriptional regulator PhoU; Provisional; Region: PRK11115 1134782014943 PhoU domain; Region: PhoU; pfam01895 1134782014944 PhoU domain; Region: PhoU; pfam01895 1134782014945 CAT RNA binding domain; Region: CAT_RBD; pfam03123 1134782014946 PRD domain; Region: PRD; pfam00874 1134782014947 PRD domain; Region: PRD; pfam00874 1134782014948 PTS system beta-glucoside-specific transporter subunits IIABC; Provisional; Region: PRK09824 1134782014949 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1134782014950 active site turn [active] 1134782014951 phosphorylation site [posttranslational modification] 1134782014952 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1134782014953 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1134782014954 HPr interaction site; other site 1134782014955 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1134782014956 active site 1134782014957 phosphorylation site [posttranslational modification] 1134782014958 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1134782014959 beta-galactosidase; Region: BGL; TIGR03356 1134782014960 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 1134782014961 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1134782014962 trimer interface; other site 1134782014963 sugar binding site [chemical binding]; other site 1134782014964 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 1134782014965 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 1134782014966 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1134782014967 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1134782014968 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1134782014969 active site 1134782014970 trimer interface [polypeptide binding]; other site 1134782014971 allosteric site; other site 1134782014972 active site lid [active] 1134782014973 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 1134782014974 putative inner membrane protein; Provisional; Region: PRK09823 1134782014975 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 1134782014976 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1134782014977 active site 1134782014978 motif I; other site 1134782014979 motif II; other site 1134782014980 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1134782014981 Predicted flavoprotein [General function prediction only]; Region: COG0431 1134782014982 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1134782014983 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1134782014984 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 1134782014985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1134782014986 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1134782014987 substrate binding pocket [chemical binding]; other site 1134782014988 dimerization interface [polypeptide binding]; other site 1134782014989 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 1134782014990 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1134782014991 putative substrate translocation pore; other site 1134782014992 tryptophan permease TnaB; Provisional; Region: PRK09664 1134782014993 aromatic amino acid transport protein; Region: araaP; TIGR00837 1134782014994 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 1134782014995 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1134782014996 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1134782014997 catalytic residue [active] 1134782014998 Tryptophanese operon leader peptide; Region: Tna_leader; pfam08053 1134782014999 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1134782015000 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1134782015001 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1134782015002 G1 box; other site 1134782015003 GTP/Mg2+ binding site [chemical binding]; other site 1134782015004 Switch I region; other site 1134782015005 G2 box; other site 1134782015006 Switch II region; other site 1134782015007 G3 box; other site 1134782015008 G4 box; other site 1134782015009 G5 box; other site 1134782015010 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1134782015011 membrane protein insertase; Provisional; Region: PRK01318 1134782015012 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1134782015013 hypothetical protein; Validated; Region: PRK00041 1134782015014 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1134782015015 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1134782015016 Mu-like prophage protein [General function prediction only]; Region: COG3941 1134782015017 tape measure domain; Region: tape_meas_nterm; TIGR02675 1134782015018 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1134782015019 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 1134782015020 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 1134782015021 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 1134782015022 large terminase protein; Provisional; Region: 17; PHA02533 1134782015023 Terminase-like family; Region: Terminase_6; pfam03237 1134782015024 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]; Region: COG2401 1134782015025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782015026 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1134782015027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782015028 Walker A/P-loop; other site 1134782015029 Walker A/P-loop; other site 1134782015030 ATP binding site [chemical binding]; other site 1134782015031 ATP binding site [chemical binding]; other site 1134782015032 Q-loop/lid; other site 1134782015033 ABC transporter signature motif; other site 1134782015034 Walker B; other site 1134782015035 D-loop; other site 1134782015036 H-loop/switch region; other site 1134782015037 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1134782015038 ParB-like nuclease domain; Region: ParBc; pfam02195 1134782015039 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1134782015040 ParB-like nuclease domain; Region: ParBc; pfam02195 1134782015041 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1134782015042 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1134782015043 ATP binding site [chemical binding]; other site 1134782015044 putative Mg++ binding site [ion binding]; other site 1134782015045 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1134782015046 nucleotide binding region [chemical binding]; other site 1134782015047 ATP-binding site [chemical binding]; other site 1134782015048 Repressor of phase-1 flagellin; Region: Flag1_repress; pfam03614 1134782015049 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1134782015050 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1134782015051 active site 1134782015052 HIGH motif; other site 1134782015053 KMSKS motif; other site 1134782015054 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1134782015055 tRNA binding surface [nucleotide binding]; other site 1134782015056 anticodon binding site; other site 1134782015057 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1134782015058 dimer interface [polypeptide binding]; other site 1134782015059 putative tRNA-binding site [nucleotide binding]; other site 1134782015060 antiporter inner membrane protein; Provisional; Region: PRK11670 1134782015061 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1134782015062 Walker A motif; other site 1134782015063 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1134782015064 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782015065 Catalytic site [active] 1134782015066 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1134782015067 active site 1134782015068 metal binding site [ion binding]; metal-binding site 1134782015069 interdomain interaction site; other site 1134782015070 Protein of unknown function (DUF551); Region: DUF551; pfam04448 1134782015071 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1134782015072 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1134782015073 Methyltransferase domain; Region: Methyltransf_27; pfam13708 1134782015074 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1134782015075 S-adenosylmethionine binding site [chemical binding]; other site 1134782015076 Protein of unknown function (DUF3927); Region: DUF3927; pfam13064 1134782015077 tellurite resistance protein terB; Region: terB; cd07176 1134782015078 putative metal binding site [ion binding]; other site 1134782015079 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1134782015080 RNA/DNA hybrid binding site [nucleotide binding]; other site 1134782015081 active site 1134782015082 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 1134782015083 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1134782015084 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1134782015085 active site 1134782015086 catalytic site [active] 1134782015087 substrate binding site [chemical binding]; other site 1134782015088 AAA domain; Region: AAA_17; pfam13207 1134782015089 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1134782015090 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1134782015091 folate binding site [chemical binding]; other site 1134782015092 NADP+ binding site [chemical binding]; other site 1134782015093 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1134782015094 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1134782015095 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 1134782015096 dimerization interface [polypeptide binding]; other site 1134782015097 active site 1134782015098 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 1134782015099 metal binding site [ion binding]; metal-binding site 1134782015100 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 1134782015101 metal binding site [ion binding]; metal-binding site 1134782015102 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1134782015103 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1134782015104 dimer interface [polypeptide binding]; other site 1134782015105 putative radical transfer pathway; other site 1134782015106 diiron center [ion binding]; other site 1134782015107 tyrosyl radical; other site 1134782015108 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1134782015109 ATP cone domain; Region: ATP-cone; pfam03477 1134782015110 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1134782015111 active site 1134782015112 dimer interface [polypeptide binding]; other site 1134782015113 catalytic residues [active] 1134782015114 effector binding site; other site 1134782015115 R2 peptide binding site; other site 1134782015116 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782015117 endonuclease subunit; Provisional; Region: 46; PHA02562 1134782015118 Walker A/P-loop; other site 1134782015119 ATP binding site [chemical binding]; other site 1134782015120 Q-loop/lid; other site 1134782015121 ABC transporter signature motif; other site 1134782015122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1134782015123 ABC transporter signature motif; other site 1134782015124 Walker B; other site 1134782015125 D-loop; other site 1134782015126 H-loop/switch region; other site 1134782015127 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1134782015128 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1134782015129 active site 1134782015130 metal binding site [ion binding]; metal-binding site 1134782015131 Initiator Replication protein; Region: Rep_3; cl17676 1134782015132 hypothetical protein; Region: PHA02053 1134782015133 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1134782015134 SPFH domain / Band 7 family; Region: Band_7; pfam01145 1134782015135 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 1134782015136 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1134782015137 Walker A motif; other site 1134782015138 ATP binding site [chemical binding]; other site 1134782015139 Walker B motif; other site 1134782015140 PIN domain of bacteriophage T3, T4 RNase H, T5-5'nuclease, and homologs; Region: PIN_T4-like; cd09860 1134782015141 5'-3' exonuclease; Region: 53EXOc; smart00475 1134782015142 active site 1134782015143 metal binding site 1 [ion binding]; metal-binding site 1134782015144 5' ssDNA interaction site; other site 1134782015145 3' ssDNA interaction site; other site 1134782015146 metal binding site 2 [ion binding]; metal-binding site 1134782015147 H3TH domain of bacteriophage T3, T4 RNase H, T5-5' nucleases, and homologs; Region: H3TH_T4-like; cd09899 1134782015148 DNA binding site [nucleotide binding] 1134782015149 metal binding site [ion binding]; metal-binding site 1134782015150 PHP domain; Region: PHP; pfam02811 1134782015151 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 1134782015152 active site 1134782015153 PHP Thumb interface [polypeptide binding]; other site 1134782015154 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1134782015155 Uracil DNA glycosylase superfamily; Region: UDG; pfam03167 1134782015156 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 1134782015157 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1134782015158 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 1134782015159 metal ion-dependent adhesion site (MIDAS); other site 1134782015160 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1134782015161 sequence-specific DNA binding site [nucleotide binding]; other site 1134782015162 salt bridge; other site 1134782015163 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1134782015164 active site 1134782015165 DNA binding site [nucleotide binding] 1134782015166 Int/Topo IB signature motif; other site 1134782015167 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 1134782015168 Domain of unknown function (DUF303); Region: DUF303; pfam03629 1134782015169 potential protein location (hypothetical protein O3M_25994 [Escherichia coli O104:H4 str. 2009EL-2050]) that overlaps RNA (tRNA-other) 1134782015170 DNA ligase; Provisional; Region: 30; PHA02587 1134782015171 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1134782015172 DNA binding site [nucleotide binding] 1134782015173 active site 1134782015174 The Oligonucleotide/oligosaccharide binding (OB)-fold domain is a DNA-binding module that is part of the catalytic core unit of ATP dependent DNA ligases; Region: OBF_DNA_ligase_family; cl08424 1134782015175 DNA binding site [nucleotide binding] 1134782015176 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1134782015177 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1134782015178 Walker A motif; other site 1134782015179 ATP binding site [chemical binding]; other site 1134782015180 Walker B motif; other site 1134782015181 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 1134782015182 ParA-like protein; Provisional; Region: PHA02518 1134782015183 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1134782015184 P-loop; other site 1134782015185 Magnesium ion binding site [ion binding]; other site 1134782015186 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 1134782015187 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1134782015188 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1134782015189 virion protein; Provisional; Region: V; PHA02564 1134782015190 Phage tail fibre adhesin Gp38; Region: GP38; pfam05268 1134782015191 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782015192 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1134782015193 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 1134782015194 Phage-related protein, tail component [Function unknown]; Region: COG4733 1134782015195 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1134782015196 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1134782015197 Interdomain contacts; other site 1134782015198 Myosin tail; Region: Myosin_tail_1; pfam01576 1134782015199 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1134782015200 Phage-related protein, tail component [Function unknown]; Region: COG4723 1134782015201 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1134782015202 MPN+ (JAMM) motif; other site 1134782015203 Zinc-binding site [ion binding]; other site 1134782015204 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1134782015205 NlpC/P60 family; Region: NLPC_P60; pfam00877 1134782015206 lambda-like phage minor tail protein L; Region: phage_tail_L; TIGR01600 1134782015207 Phage-related protein [Function unknown]; Region: COG4718 1134782015208 Helix-turn-helix domain; Region: HTH_36; pfam13730 1134782015209 Phage integrase family; Region: Phage_integrase; pfam00589 1134782015210 active site 1134782015211 DNA binding site [nucleotide binding] 1134782015212 Int/Topo IB signature motif; other site 1134782015213 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1134782015214 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 1134782015215 P-loop; other site 1134782015216 Magnesium ion binding site [ion binding]; other site 1134782015217 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 1134782015218 Mg binding site [ion binding]; other site 1134782015219 nucleotide binding site [chemical binding]; other site 1134782015220 putative protofilament interface [polypeptide binding]; other site 1134782015221 Plasmid stability protein; Region: Plasmid_stab_B; pfam10784 1134782015222 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 1134782015223 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1134782015224 active site 1134782015225 DNA binding site [nucleotide binding] 1134782015226 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1134782015227 Catalytic site [active] 1134782015228 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1134782015229 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1134782015230 Presynaptic Site I dimer interface [polypeptide binding]; other site 1134782015231 catalytic residues [active] 1134782015232 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1134782015233 Synaptic Flat tetramer interface [polypeptide binding]; other site 1134782015234 Synaptic Site I dimer interface [polypeptide binding]; other site 1134782015235 DNA binding site [nucleotide binding] 1134782015236 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1134782015237 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1134782015238 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1134782015239 PapC N-terminal domain; Region: PapC_N; pfam13954 1134782015240 pilin outer membrane usher protein SafC; Provisional; Region: PRK15223 1134782015241 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1134782015242 PapC C-terminal domain; Region: PapC_C; pfam13953 1134782015243 Enterobacteria AfaD invasin protein; Region: AfaD; pfam05775 1134782015244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1134782015245 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1134782015246 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015247 Transposase; Region: HTH_Tnp_1; pfam01527 1134782015248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015249 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782015250 alanine--tRNA ligase; Region: alaS; TIGR00344 1134782015251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015252 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782015253 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782015254 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782015255 Integrase core domain; Region: rve; pfam00665 1134782015256 Integrase core domain; Region: rve_3; pfam13683 1134782015257 putative transposase OrfB; Reviewed; Region: PHA02517 1134782015258 Helix-turn-helix domain; Region: HTH_28; pfam13518 1134782015259 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015260 Transposase; Region: HTH_Tnp_1; cl17663 1134782015261 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 1134782015262 substrate binding pocket [chemical binding]; other site 1134782015263 aspartate-rich region 2; other site 1134782015264 substrate-Mg2+ binding site; other site 1134782015265 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1134782015266 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782015267 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782015268 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782015269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782015270 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782015271 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782015272 Transposase; Region: HTH_Tnp_1; cl17663 1134782015273 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1134782015274 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1134782015275 Transposase; Region: HTH_Tnp_1; cl17663 1134782015276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015277 HTH-like domain; Region: HTH_21; pfam13276 1134782015278 putative transposase OrfB; Reviewed; Region: PHA02517 1134782015279 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 1134782015280 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1134782015281 putative active site [active] 1134782015282 putative NTP binding site [chemical binding]; other site 1134782015283 putative nucleic acid binding site [nucleotide binding]; other site 1134782015284 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 1134782015285 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782015286 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782015287 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782015288 potential frameshift: common BLAST hit: gi|116006799|ref|YP_787982.1| protease IgA1 1134782015289 Transposase; Region: HTH_Tnp_1; pfam01527 1134782015290 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1134782015291 Uncharacterized conserved protein [Function unknown]; Region: COG2433 1134782015292 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1134782015293 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1134782015294 Walker A/P-loop; other site 1134782015295 ATP binding site [chemical binding]; other site 1134782015296 Q-loop/lid; other site 1134782015297 ABC transporter signature motif; other site 1134782015298 Walker B; other site 1134782015299 D-loop; other site 1134782015300 H-loop/switch region; other site 1134782015301 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 1134782015302 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1134782015303 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1134782015304 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1134782015305 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782015306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015307 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782015308 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782015309 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015310 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782015311 Transposase; Region: HTH_Tnp_1; pfam01527 1134782015312 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015313 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782015314 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1134782015315 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1134782015316 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 1, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of Neisseria and Haemophilus IgA1 proteases; Region: PL1_Passenger_AT; cd01343 1134782015317 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1134782015318 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1134782015319 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1134782015320 catalytic residues [active] 1134782015321 Domain of unknown function (DUF932); Region: DUF932; pfam06067 1134782015322 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1134782015323 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1134782015324 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1134782015325 catalytic residue [active] 1134782015326 TraM protein; Region: Tra_M; pfam05261 1134782015327 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1134782015328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1134782015329 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1134782015330 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1134782015331 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 1134782015332 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK14712 1134782015333 AAA domain; Region: AAA_30; pfam13604 1134782015334 DNA helicase TraI; Region: TraI; pfam07057 1134782015335 conjugal transfer nickase/helicase TraI; Provisional; Region: PRK14712 1134782015336 conjugal transfer pilus acetylation protein TraX; Provisional; Region: PRK13706 1134782015337 conjugal transfer fertility inhibition protein FinO; Provisional; Region: PRK13754 1134782015338 Fertility inhibition protein N terminal; Region: FinO_N; pfam12602 1134782015339 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cd00236 1134782015340 putative RNA binding sites [nucleotide binding]; other site 1134782015341 Transposase; Region: HTH_Tnp_1; pfam01527 1134782015342 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015343 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015344 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782015345 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782015346 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1134782015347 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1134782015348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015349 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1134782015350 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1134782015351 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782015352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1134782015353 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1134782015354 Transposase; Region: HTH_Tnp_1; pfam01527 1134782015355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1134782015356 Transposase domain (DUF772); Region: DUF772; pfam05598 1134782015357 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 1134782015358 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 1134782015359 replication protein; Provisional; Region: PRK13702 1134782015360 leader peptide RepL; Provisional; Region: PRK13716 1134782015361 IncFII RepA protein family; Region: IncFII_repA; cl11495 1134782015362 IncFII RepA protein family; Region: IncFII_repA; cl11495 1134782015363 Predicted transcriptional regulator [Transcription]; Region: COG3905 1134782015364 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1134782015365 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 1134782015366 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 1134782015367 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1134782015368 active site 1134782015369 catalytic residues [active] 1134782015370 DNA binding site [nucleotide binding] 1134782015371 Int/Topo IB signature motif; other site 1134782015372 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1134782015373 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1134782015374 oligomeric interface; other site 1134782015375 putative active site [active] 1134782015376 homodimer interface [polypeptide binding]; other site 1134782015377 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1134782015378 plasmid maintenance protein CcdA; Provisional; Region: PRK13710 1134782015379 plasmid maintenance protein CcdB; Provisional; Region: PRK13708